In reality you pulled 4 of the timing cover bolts when pulling the water pump. The four 13mm on the outer corners are also timing cover bolts..no worries on that. There shouldn't be anything you could have gotten near when doing either of those jobs.

As for doing the pcs for a better cost, PM DanThurs he's in WI and has done them before. He's a good guy, doing work for a fair price. While that's being done, I'd suggest a shift kit at the same time.