Guy Gardener wrote:

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WHATLEY: " the Bajoran militia has to be absorbed into Starfleet.
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This might be like when a new member in NATO have their military command structures put in line with other NATO members so as that they can co-ordinate joint operations. But the NATO member retains direct control over their military.
The multiple series have shown us that there are a lot of different ways to build a starship, lots of different configurations. If Starfleet simply took over total control of all of it's 150 plus members starships, then we wouldn't just be seeing a few different types of starships in Starfleet, we would be seeing a incredible wild assortment of ship types.
Which we did not see, not even during the big battles of the Dominion War.
Mr. Laser Beam wrote:

Actually I believe that there has been onscreen mention of Federation member worlds retaining their own militaries for purely local matters.
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Both Betazed and Vulcan come to mind. Betazed was able independently to fight off the Dominion for a time, And the Vulcans quickly went to intercept the Romulans, when they crossed the the NZ.