98 Ford F-150 Jerking when driving

I have a 98 Ford F150, V8 Triton with an Auto Transmission, 143,345 miles and for the past 6 months have had the check engine light on. I was told by an auto parts store that it was a bad egr valve and then a misfire on the spark plugs. I replaced the egr valve, spark plugs, spark plug wires and one of the coil caps and still the check engine light doesn't turn off. Now while driving around 60-70 mph the truck jerks back and forth almost like it's slipping. Feeling it needed a Pro to check it out. I took it to 2 auto shops and was told two different diagnosis. One told me the computer showed a 401 insufficient EGR flow and would need the Throttle Bottle intake cleaned, dpse replaced, and the B&G induction ports cleaned around $500. The other shop told me that they were getting two transmission codes and that it was the transmission direct drum and gears that were starting to fail, and would need a complete rebuild($2500.00) even road tested it and experienced my symptoms. My wife and I are at a lost since they are two very different diagnoses. Not sure if the first shop cleared the first error codes and that's why the second shop didn't detect them. Any help and suggestions would be greatly appreciated. Thanks.