Pep agrees with you (interview on BT Sport, however I am not sure he actually saw the offences. I think he's just assuming VAR must have called it right).
I didn't think either were pens.
No.1 - Ota) He was pulling his arm out of the way. It's interpretation but VAR should only be used if it's a clear error and it is not clear.
No.2 - Fern) It's a foul, but those fouls are commonplace. Refs normally ignore them.
No. 3 - Ota Red). It's a foul but there was no force. It's not a yellow.
I think we started giving the ball away too often after a good start so I agree it was not a great performance, however the closing goals were nothing short of sensational. Not only the free-kick but the build-up to the free-kick. And then the pass by Ederson. I think commentators might think it was a hopeful punt but that was a wonderful pass.
Ederson is changing the concept of goalkeeping. You can not speak too highly of that pass.