I seriously doubt you have a bent rod... In any event, pulling the heads with the engine in the car is massively difficult. I'd just drop the oil pan (very easy) and have a look. You never want to replace a single conrod for a couple of reasons... there will undoubtably be a weight difference and I've seen rods lengths slightly differ...
If you really do have a rod that is bent, then a full rotating assembly balance would be required along with accurately measuring the length of a replacement rod..... and making sure at the same time that the crank wasn't damaged. An engine out job.
Make sure on the left hand valve cover spark plug wire separator the #7 wire is in the front location and the #8 wire is in the rear location. This is because 7 and 8 are next to each other in the firing order. This was noted by Ford and Rootes to be a potential for cross-firing and it is called out in the shop manual.
Over priming would not have caused this issue. even if you hydro-locked the engine it wouldn't have bent a rod. The only way that happens is when you drop a valve...
I suggest you go back and check the valve clearances again as well. In any event, if your clearances are wrong, it'll show up with the compression test.
If it was the balancer slipping on the rubber core/ring the engine would run very roughly...
I restore these cars for my living... and have owned Tigers for 30 years.... before that I was heavily into to Mustangs... over 45 years of experience with Ford engines!