Thanks Rick.
Double checked the led light, not the issue. I put the ISCP in that way since I do not plan on having daughter boards, and its eaiser to connect the PICKit 3 inside the enclosure this way.
ED #1 - Overheats, 3.3v short: Here is a photo of the other chip. There does seem to be a bridge, i have circled it. Is that a factory bridge or an error?
ED#2 - no connection: This one is a 32mx pick issue I'm pretty sure. Look at the attached photo of it (2nd photo)
Kevin