Rule #1 - need to post year and type of SHO.
You need to retrace everything you disassembled/disconnected recently. Control of the interior/courtesy lights when the doors are open are controlled by the door jam switches at the front of each door.
Did both rear window motors stop working at the same time, and at the same time as the interior/courtesy lights ?
Does the car have keyless entry or illuminated entry ?
And as mentioned above, were any fuses blown ?
The probability of all the door jam switches failling at once is statistically improbable (like one-in-a-gazillion, and they didn't make that many SHOs). This leaves fuses, electrical short, or an illuminated entry/keyless entry module fault. It's possible that an electrical surge when the battery was connected fried a fuse or control module.
The probability of both rear door window motors failling at the same time is statistically highly unlikely (like one-in-a-million), so it is much more possible than all door jam switches. This leaves mutliple electrical shorts, a problem with the Driver's door master control switch, or the keyless entry module (if so equipped). And again, it's possible that an electrical surge when the battery was connected fried a circuit in the keyless entry control module.
Do you have a multi-meter and access to salvage yard for parts ?
I am not sure about interior lights though, my buddy had that problem with his explorer 3 or 4 years ago, and guess what, we never figured it out and it is that way to this day
