OK, here is the list of notices: (I hate pasting all this here but it's a working site and I can't keep the debug active for long)

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Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file include/common.php line 215
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/config.php line 239
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/config.php line 239
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/groupperm.php line 229
Notice [PHP]: Only variables should be assigned by reference in file kernel/blockinstance.php line 169
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Undefined index: lang_rememberme in file templates_c/%%6E^6E8^6E8C036B%%db%3Asystem_block_login.html.php line 12
Notice [PHP]: Undefined index: sslloginlink in file templates_c/%%6E^6E8^6E8C036B%%db%3Asystem_block_login.html.php line 19
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 151
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/groupperm.php line 229
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 154
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/smartfaq/xoops_version.php line 320
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/system/blocks/system_blocks.php line 159
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variable references should be returned by reference in file modules/AMS/class/idgobject.php line 129
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/profile.php line 94
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/config.php line 239
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 312
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 313
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 316
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 322
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 329
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 331
Notice [PHP]: Only variables should be assigned by reference in file modules/AMS/blocks/ams_spotlight.php line 39
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 312
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 313
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 316
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 322
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 329
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 331
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/config.php line 239
Notice [PHP]: Only variable references should be returned by reference in file modules/xhld0/include/functions.php line 14
Notice [PHP]: Only variables should be assigned by reference in file modules/xhld0/class/headlinerenderer.php line 259
Notice [PHP]: Only variable references should be returned by reference in file modules/xhld0/include/functions.php line 14
Notice [PHP]: Only variables should be assigned by reference in file modules/xhld0/class/headlinerenderer.php line 259
Notice [PHP]: Only variable references should be returned by reference in file kernel/blockinstance.php line 111
Notice [PHP]: Only variable references should be returned by reference in file modules/smartfaq/include/functions.php line 588
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/groupperm.php line 229
Notice [PHP]: Only variables should be assigned by reference in file modules/smartfaq/class/permission.php line 47
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/groupperm.php line 229
Notice [PHP]: Only variables should be assigned by reference in file modules/smartfaq/class/permission.php line 47
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/smartfaq/class/faq.php line 1066
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 310
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 312
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 313
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 316
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 322
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 329
Notice [PHP]: Only variables should be assigned by reference in file class/module.textsanitizer.php line 331
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file kernel/config.php line 239
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/newbb/class/permission.php line 104
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Undefined index: enable_usermoderate in file modules/newbb/class/permission.php line 54
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file modules/newbb/class/permission.php line 104
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variable references should be returned by reference in file modules/smartfaq/include/functions.php line 588
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variable references should be returned by reference in file kernel/blockinstance.php line 111
Notice [PHP]: Constant _MSW_B_INTHE already defined in file modules/ms_weather/language/greek/blocks.php line 36
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variables should be assigned by reference in file class/database/mysqldatabase.php line 242
Notice [PHP]: Only variable references should be returned by reference in file kernel/module.php line 172
Notice [PHP]: Undefined index: xoops_module_header in file templates_c/%%70^70D^70D8C3DC%%theme.html.php line 35
Notice [PHP]: Undefined index: xoops_clblocks in file templates_c/%%70^70D^70D8C3DC%%theme.html.php line 112
Notice [PHP]: Undefined index: xoops_crblocks in file templates_c/%%70^70D^70D8C3DC%%theme.html.php line 131

I don't get a blank page... Clicking on the banner won't open any page. It won't do a thing!

I still have this problem...

I added a banner to my website but clicking on it won't work. It seems to count the click but it won't open a new page. It's strange because the cursor changes over it. The original XOOPS banners also worked fine, it's the newly added ones that have a problem.
The problem exists with some browsers like IE, Firefox, iCab etc. Safari works fine.

Sorry, but I have the same problem and I am not sure how to update the System module. Do you mean "upload it again" or something? I only have one template set, btw

edit: never mind. problem solved