For example, suppose relief pitcher X has three appearances. In the first one he throws 5 innings but in the next two he comes in and gets the final out in the 9th inning. So now he has 5.2 IP in 3 games. Still think he should be an R2?
A good point but let's adjust it a bit. Suppose pitcher x has six appearances of 4 to 6 innings and follows that with 57 where he does not go at least 4. He actually has 45 games where he goes 2 innings or less. That is 71%. Still think he is an R4? Seems more reasonable to say he is an R3 and managed to stretch a handful of games out finishing up fatigued because there was nobody left rested to come in. Remember that R4 does not mean he gets tired in his 4th inning. By rules of the board game he only becomes eligible to get tired once he gives up the required number of hits/walks. Given how good that card is he could easily stretch out a small percentage of games beyond his point of weakness inning.
Though to be honest I would not have a huge problem with Murray getting the R4 if they just enforced a rule that said he needed to be rested for a game or more after pitching 4+ innings. Or if he does come in before he rests sufficient games he came in tired.
Consider:
Went 3 innings on May 9. Faced 3 hitters next day giving up 2 hits and an earned run. Fatigued? That was May 10. He did not pitch again for Montreal until June 18, more than 3 weeks later. injured or sent down to Memphis because he was tired and needed some time off.
He was not used for 4 innings or more again until July 13 when he went 6. That was followed by 3 days rest.
Went 4 innings on July 20 followed by a rest day.
So two solutions to his unrealistic overuse. Lowing the R4 rating or require rest after an outing relative to how many innings he pitched in previous outing.