Success! I am happy! Got to buy a few more goodies at Harbor Freight tools, that work great. And more important: my Ninja, and I will be riding to work together tomorrow morning.
Learned A LOT from this experience. Thanks again Kelly
After messing with taking off plastics, and tracing fuel, and vacuum lines, adding more fuel (in case I had bad gas): the bike fired up, and seems to be back to normal. In the end I think problem was the fuel petcock switch. I feel rather foolish but I think one of the guys who ride the big bikes at work may have turned it enough to cause the problem I had. I turned it a few times to make sure it moved, and just don't remember if it was in the full on position before I moved it. I only know after I turned it to on, and cranked it a few times it started, and ran fine.