Go for it. I flew EVA the last couple times I went to Indonesia, including our honeymoon. I found it to be about almost as nice as Singapore Airlines. The bump up to "Premium Economy" (whatever they call it now) is well worth it. It compares favorably to "Executive Economy" on Singapore Airlines. Not sure how the leg from TPE to Manila works, but their flight from TPE to JKT was a 747 when I did it. Being in a premium class of service allowed you to select seats all the way up in the nose of the plane for that leg and it was very quiet -- the view out of the window seats at the very front was great. Note that they used to do seat assignments online and open it up exactly one month before departure -- so be on the lookout for that if they still do it.
Now TPE is not as nice an airport as SIN. However, there is a place where you can get a shower and change clothes, etc.