A proud member of overthinkers anonymous, I love it.
1. What is the problem you are trying to solve? What's the downside here? Absolute worst case scenario, you have damaged the flaps and the aircraft will need maintenance. No injuries, no undesirable aircraft state, no huhu. Actual scenario ... nothing. A few knots for a few seconds in an abnormal situation is not an issue.
2. If the airspeed is fluctuating that much, is that a safe time to retract flaps? If it jumps up so much that you exceed the barber pole, what happens when you retract the flaps and it drops an equal amount?
3. As you have discovered, a severe windshear is a very busy time. Dynamic. Not a good time to be calling for weird things and grabbing levers. A "wait for staging" kind of situation. Once you are out of the windshear and the airspeed stabilizes, then you can calm down and think about retracting flaps.