Thanks for the feedback!
Having little control over the deck is intended as we want the focus on upgrading and changing the values of cards. We may add a bit more control over it in the future but we don't currently have any plans for it.
As for the different point types, we do want them to be more closely tied together to make sure you need to at least interact with a couple different systems in order to achieve victory. We are working on making some changes to some of the systems and that along with some balance changes will hopefully get us there.
Defense is one of the systems we plan to make some adjustments to and we will take a look at how quickly the ships appear. Let us know if you think of any other changes you think would help.
Some card stats sound like a great idea! I'll take a look at adding some stat displays to the deck/discard viewer.