I cleaned my negative battery terminal on my 2005 tc and now the passenger window won't work from the driver's side door. How do I get it to work again. Also, now the engine runs rough.

 

yeah its normal u have to program it again basically jus hold the button up till it goes up and then down to go down after awhile it will be programmed again, and if u have a moonroof do the same on that.

 

need to reset the window, there are a few posts about this as well as in your manual if you still have it. i would tell you how to do it but i havent done it in awhile and dont want to give you bad info.
as for the engine, allow the ecu to reset it self, should clear up after awhile.

 

i thought it was roll down to more than halfway and then hold the up button for 5 seconds after it fully closes.

 

https://www.scionlife.com/forums/viewtopic.php?t=59647

http://home.roadrunner.com/~icdedppl/faq.html#c14

This is also in the Owner's Manual.