You can not seal the kyubi before sealing all the others.. that would blow up their little statue!!
other then that, we can not assume that they necessarily need to start from 1 to 9 in order.
That so, they sealed
1 - 3 - 2.
They have the 4th and didn't seal it yet.
But if naruto is a weakling, why not capture him, and throw in a cell for some years??
The first attempt was to see how aware of akatsuki people of Konoha were.
Don't see any problem with this