Well it depends on how long you are working on it daily.
Depending on the complexity, design should take around 2-4 hours.
4 pages, depending on content length, should be around 4-6 hours, including proof reading, quality, etc.
Depending on how many, plugins should take around 2-5 hours, then around 1-3 hours of configuring to make sure everything runs smoothly together.
Flipbook can be based off an existing jquery plugin, modified to your needs, around 1-3 hours.
Add in some business day hours for that security approval; should take around 2 days maybe?
Then some time to finalize everything, like you said, would be needed; with a buffer in case you get a brain fart looking for a solution.