My son felt the same things. His surgeon said that there's going to be some discomfort because you have a ways to go to get 100% back in business even if you felt great throwing initially.
My son felt discomfort because he subconciously altered his arm slot and delivery. And, hey, you haven't used your elbow, shoulder, etc. for throwing for months and months.
1) Don't rush it. My son was throwing at 8 months, pitching off a mound at 9...but it took him a long while to get where I'm sure YOU want to be. Your entire body has to be back in business. So, take your time.
2) Go see your surgeon. If it hurts...you don't want to hear conjecture from me or anyone else. (And, honest, you are only hearing what people think. You don't your career hinging on that! Right?)
I'd suggest you throw some with a physical therapist around to watch for little things you might be doing. My son threw on his own and, we determined, that caused him discomfort...and some issues when he was ready to pitch.
The things you described are what my son described and his surgery was a total success.