I recently replaced the main seals, clutch, transmission input and output seals as well as the slave cylinder. I put it all together and it ran like a million bucks until I discovered that the main seal was leaking after about 100 miles.
After a few hours of grumpiness I pulled out my tools and tore it apart again in 2.5 hours. 8 hours last night and I had it ready to go again and then I started it...
It idled fast (about 2,000 rpm) and ran rough.
It sounded like it did around 36,000 miles when the stick coils went out. I replaced them at that time and it ran well again. I'd be surprised if the coils have gone bad already. I checked throttle cable play and all looked good. Also, the vacuum lines were still connected to the bottom of the TBs.
I did notice one strange thing though about those two vent lines that come out of the tank. One of them goes, I don't know where. The other one isn't connected to anything on the non-tank end. I tried plugging it while the bike ran with no change in performance.
It is the overfill drain that is not connected to anything, which doesn't sound like a big deal but I think it's worth mentioning

Can someone please give me some advice here? I'm dying to ride my baby again
