Where as you got the timeline like this:
Ultimate Comics: The Ultimates #3, "The Republic is Burning, Part 3"
Ultimate Comics: The Ultimates #4, "The Republic is Burning, Part 4"
Ultimate Comics: The Ultimates #5, "The World, Part 1" (pg. 1-7)
Ultimate Comics: All-New Spider-Man #4 (pg. 19-20)
Ultimate Comics: All-New Spider-Man #5
Ultimate Comics: All-New Spider-Man #6
Ultimate Comics: The Ultimates #5, "The World, Part 1" (pg. 8-20)
Ultimate Comics: The Ultimates #6, "The World, Part 2"
Ultimate Comics: X-Men #12
Ultimate Comics: X-Men #13, "Born Free" (pg. 4-17, 1-4, 18-20)
Ultimate Comics: The Ultimates #7, "Two Cities. Two Worlds, Part 1" (pg. 16-18, 3-6, 1-2, 7-15, 18-19)
Ultimate Comics: The Ultimates #8, "Two Cities. Two Worlds, Part 2"
Ultimate Comics: The Ultimates #9, "Two Cities. Two Worlds, Part 3" (pg. 1-18)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 3-5)
Ultimate Comics: The Ultimates #9, "Two Cities. Two Worlds, Part 3" (pg. 19)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 1-2, 8-11, 6-7, 12-20)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 7)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 6-7, 12-20)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 1-6, 8-13)
Ultimate Comics: The Ultimates #12, "Two Cities. Two Worlds, Part 6" (pg. 14)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 14-20)
Ultimate Comics: The Ultimates #12, "Two Cities. Two Worlds, Part 6" (pg. 1-13, 15-20)
Ultimate Comics: All-New Spider-Man #7
Ultimate Comics: All-New Spider-Man #8
Ultimate Comics: All-New Spider-Man #9
Ultimate Comics: All-New Spider-Man #10
Ultimate Comics: All-New Spider-Man #11 (pg. 2-20)
Ultimate Comics: All-New Spider-Man #12
Spider-Men #1 (pg. 1-14)
Spider-Men #1 (pg. 14-20)
Spider-Men #2 (pg. 1-4)
Spider-Men #2 (pg. 3-21)
Spider-Men #3 (pg. 1-3)
Spider-Men #3 (pg. 3-4)
Spider-Men #3 (pg. 4-7)
Spider-Men #3 (pg. 7)
Spider-Men #3 (pg. 8-9)
Spider-Men #3 (pg. 9)
Spider-Men #3 (pg. 10-12)
Spider-Men #3 (pg. 10-12)
Spider-Men #3 (pg. 13-20)
Spider-Men #4
Spider-Men #5 (pg. 1-3)
Spider-Men #5 (pg. 3-11)
Spider-Men #5 (pg. 11-14)
Spider-Men #5 (pg. 14-19)
Spider-Men #5 (pg. 20)
I would change it to this:
Ultimate Comics: The Ultimates #3, "The Republic is Burning, Part 3"
Ultimate Comics: The Ultimates #4, "The Republic is Burning, Part 4"
Ultimate Comics: The Ultimates #5, "The World, Part 1" (pg. 1-7)
Ultimate Comics: All-New Spider-Man #4 (pg. 19-20)
Ultimate Comics: All-New Spider-Man #5
Ultimate Comics: All-New Spider-Man #6
Ultimate Comics: All-New Spider-Man #7
Ultimate Comics: All-New Spider-Man #8
Ultimate Comics: All-New Spider-Man #9
Ultimate Comics: All-New Spider-Man #10
Ultimate Comics: All-New Spider-Man #11 (pg. 2-20)
Ultimate Comics: All-New Spider-Man #12
Spider-Men #1 (pg. 1-14)
Spider-Men #1 (pg. 14-20)
Spider-Men #2 (pg. 1-4)
Spider-Men #2 (pg. 3-21)
Spider-Men #3 (pg. 1-3)
Spider-Men #3 (pg. 3-4)
Spider-Men #3 (pg. 4-7)
Spider-Men #3 (pg. 7)
Spider-Men #3 (pg. 8-9)
Spider-Men #3 (pg. 9)
Spider-Men #3 (pg. 10-12)
Spider-Men #3 (pg. 10-12)
Spider-Men #3 (pg. 13-20)
Spider-Men #4
Spider-Men #5 (pg. 1-3)
Spider-Men #5 (pg. 3-11)
Spider-Men #5 (pg. 11-14)
Spider-Men #5 (pg. 14-19)
Spider-Men #5 (pg. 20)
Ultimate Comics: The Ultimates #5, "The World, Part 1" (pg. 8-20)
Ultimate Comics: The Ultimates #6, "The World, Part 2"
Ultimate Comics: X-Men #12
Ultimate Comics: X-Men #13, "Born Free" (pg. 4-17, 1-4, 18-20)
Ultimate Comics: The Ultimates #7, "Two Cities. Two Worlds, Part 1" (pg. 16-18, 3-6, 1-2, 7-15, 18-19)
Ultimate Comics: The Ultimates #8, "Two Cities. Two Worlds, Part 2"
Ultimate Comics: The Ultimates #9, "Two Cities. Two Worlds, Part 3" (pg. 1-18)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 3-5)
Ultimate Comics: The Ultimates #9, "Two Cities. Two Worlds, Part 3" (pg. 19)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 1-2, 8-11, 6-7, 12-20)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 7)
Ultimate Comics: The Ultimates #10, "Two Cities. Two Worlds, Part 4" (pg. 6-7, 12-20)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 1-6, 8-13)
Ultimate Comics: The Ultimates #12, "Two Cities. Two Worlds, Part 6" (pg. 14)
Ultimate Comics: The Ultimates #11, "Two Cities. Two Worlds, Part 5" (pg. 14-20)
Ultimate Comics: The Ultimates #12, "Two Cities. Two Worlds, Part 6" (pg. 1-13, 15-20)
The explains Fury's presence in Spider-Men as this is happning during the two issue The World arc in the Ultimates. Although it isn't perfect, this is where i would place it. A little bit more editing would be needed, but you can see the point at which im trying to make.