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It can also be the way site is designed.
Example: SONY Dealer Site.
If using FireFox, you cant use drop down links. IE 6 works fine.
I myself have had murder, when making php apps. As I would test it firefox while setting up, then check it in IE last only to find that everything is in wrong places.
No, that's just bad coding. Firefox is web standards compliant, whereas IE has a lot of it's own unique proprietary properties and features that are not compliant with current web standards, and coding a website to use them isn't good practice.
I always hate trying to get IE to work correctly with CSS too as it doesn't even follow that properly either and most of the time requires IE fixes to be added within the CSS to make it do what you want.
aye, you should see the pspuae.com, workbench 3.0 theme in IE 6 with res 800 x 600. It all goes ti*s up, ;).