I have played 4 hours worth of strikes, 2 hours of Siva Crisis and 2 hours of Heroic Siva Crisis, and have only picked up a single key. The only benefit for me to do these are to open the chests at the end but with such low drop rates, it isn't really worth the time. Incredibly frustrating.
Edit: picked up my first skeleton key since October 19th. It is now November 3rd. So far i think I've picked up a total of maybe 6 keys since roi released. That includes the 3 from the quest line.
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My problem with the skeleton keys is this: I had 5 skeleton keys in my inventory when I started playing the heroic strike playlist, and then they disappeared. After I had 5, the next strike I played was the cabal brothers strike. At the end of the strike, a skeleton key dropped, and I tried to use one of my keys and then pick the dropped one up. Neither of that happened because the mission ended before i could open the chest. When I went to orbit, I realized that I had no more skeleton keys. They disappeared from my inventory and are not in my vault!!! That is frustrating! I've read online that this has been another common issue besides the low rng for the keys. Any word on when bungie will fix this?