What would a Pinckney Presidency mean for the national bank, internal improvements, and war?
The Embargo did give the Federalists a new lease on life in New England, but that was about it. They were way too weak almost everywhere else (with a very few exceptions like Delaware) to have any chance of winning.
In fact, I would say that after 1800, the Federalists never had a chance of winning a presidential election on their own; their only hope was to back a dissident Republican like De Witt Clinton in 1812. In 1808, that would mean backing Monroe or George Clinton, but neither had any real chance of winning, and Federalist support would just make them more unpopular with their Republican supporters.
It says something that their only successful candidates were the most popular man in America who ran unopposed, and his VP, the second most popular guy in America. Anybody less imposing and they were toast.