I agree with
This episode was a great close-off, there was some conflict with the cure provision but mostly it was a good end to the series. There wouldn't really be much to continue from for a new season since the main theme of the show is about being the 'last ship' able to save humanity from a dangerous virus and the continuation probably wouldn't be on a ship (since the cure is just being distributed) which spoils the naval theme and the cure is already soon to be widely available so they wouldn't really be the 'last' anything. The resolution of several of the subplots (romance between the lieutenants, relationship between the captain and the doctor and the general plot of the soldiers returning home.) and the main plot has lead me to conclude that the continuation would be rather pointless, and the shooting of the doctor was probably only to provide a basis for the start of season 3 (i.e the immunes are not really gone) which is just annoying. All in all, 'the last ship" was a pretty great series, with a great focus on the main plot and amazing actors. Although the sub-plots were really badly handled (the frequent killing of characters when the audience just started to care about them), and there was a lot of tension that in the end amounted to nothing - for example, Niels (aka Patient Zero) was just killed and the Captain and Dr.Rachel had all that conflicted emotions between them and she just leaves? considering her character it would have been more realistic to have her worry about the shrapnel in his wound and the Captain's characterisation seemed rather off at the end. - so it does give off a feeling of a checklist being ticked for each episode to just provide the basis for the next episode without a proper focus on characterisation and character development. In a nutshell, the show is too focused on plot and not focused enough on character development and the relationships between the characters.
I do hope that the doctor survives and that the next season would be more focused on the doctor, hopefully with a villain that isn't so easily killed :)