Weather is a serious concern, I went there in May 2008 for my honeymoon and on the way back from Skardu we encountered same problem so came back by road and it was too much tiring as it was not foreseen before.
Took a decision that next time I will come here on my own SUV, so got mine in July 2012 and went to explore these areas last year, here is the link:
https://www.pakwheels.com/forums/4x4-clubs-off-roaders-suv/223440-4x4engaged-winter-september-2013-a
Stayed in Shigar Fort and Shangrilla with my family in 2008, shangrilla is not well mentained although they have given us Presidential suite but it was not worth as we were alone in the whole resort, Shigar Fort is too good, must see, its a combination of history with modern facilities and the same is true for Khaplu, stayed in Shigar Fort last year with my firends as well you will always find foreigners there and in summer it gets over crowded.
I would suggest you to talk to Serena Shigar and Khaplu and they can manage pick and drop form Skardu airport easily.
Wish to go there with family again soon.