I'd suggest the Scottish question gets resolved with Henry IX's son, Edward marrying Mary, Queen of Scots. That's in line with OTL's "rough wooing" and the fact that both are Catholics may make it more palatable to the Scots court (if not the general population if Scotland goes Reformist as per OTL - with a Catholic England it may be less prone to do so.)
Alright that seems reasonable to me, and might perhaps be tolerable to the court as well, considering the possibility of heretical support is diminished with a Catholic England.