I'm working through a Gottlieb Baseball machine with the help of some great Pinsiders, and running into some of the same issues. I've resolved most of mine, but still muddling through the hit unit. I don't have a schematic for your machine (and frankly can't read Gottlieb schematics very well), but I think I can help with one point...
Quoted from the4horse:I tried playing it today and still get the bell instead of the chimes and now I've only got the flippers working!
If your game is anything like mine, the bell should only be ringing when runs are being scored. If your hit unit is working properly, this may mean a stuck playfield switch.