Do you have an Ergo or any type of carrier that is similar...Bjorn etc? Brendan likes his and you can put them on your back as they get older which makes it easier. It doesnt face forward though like a Bjorn.
You can gate check the stroller so bring that to the gate and each time you deplane/reboard you will have it to push her in. I have a Skip Hop messenger diaper bag so that helps in terms of shoulder/hands free. You are also allowed your carry on and a diaper bag for her. I flew with Brendan and I had my own carry on, my purse, his diaper bag and a laptop
Try feeding her during takeoff/landing with either the boob or a bottle for the pressure? I fed Brendan and that helped a lot. Maybe she will eat easier this time. I think for older babies there are some sort of ear plug you can put in that helps but I couldnt use it at the time because he was too little. Call your pedi and ask for some advice too, thats why they get paid the big bucks
I would do window, just another thing to possibly occupy her. I think the aisle would be difficult because she will want to reach potentially for people walking by, the food/bev cart etc. Who cares if you have to say excuse me to the people there so you can get out
Are you going to visit family? Ship your bottles/pump two days before or overnight so it is less for you carry in your suitcase. It may be a little extra in cost but it will help you out in terms of weight/carrying!