Battery shorting killed all power

I checked for voltage and found that the middle firewall connector was not connected correctly. I fiddled around with it and got my continuity. I'll try not to fry my car again. Thank you all for your help.

I have no idea why that happened there were no signs of burns or smell of burning plastic nor did I touch it when I was working on it.
You really need to stop trying to troubleshoot using continuity, at least most of the time. Shooting for power, when there is lack of, is MUCH safer for the test equipment, and avoids somewhat leading you down the wrong road. This is in part, due to things like current causing poor connections to open. In other words you might show continuity, when under power, the bad connection fizzles open and stops working.