First commute - a few issues

[iancity]

I am sure its not a bike fit issue (but, I'm fairly new, so what do I know). I did have a professional bike fit when I bought the bike by a guy who was highly recommended at a main Giant dealer, took over an hour with me and was very impressed with the service. I have ridden pain free for a year until these issues on the commute, and while I understand its double what I usually do, I have done 30 odd miles once in a while without any issues...I thought it might be more to do with doing the ride then sitting and not moving for 2 hours...
I don't want to come across as a know it all though, and I did come on here for advice so if you learned lot do still think its a bike fit issue, no harm in trying some things out I guess...
the food stop was more needing a breather than a banana !