Ok I noticed doing a search on this subject we are missing a door at the DS9/Bajor Ursa Beta Block... how sad. Hopefully they can get it fixed in the 0.6b version of the Foundry.
Well this is how I am going to do a "work around" the issue on my current mission I am writing. I am telling the captain that for reasons "unknown" they will need to go to the Malon System in the Ursa Beta Block and take a shuttle to DS9 from there.
So in reality they are going to enter the station from the Malon System without actually going by any shuttle. I hope this solution helps other authors out there.