In our smp world the fortresses we generated in minecraft 1.7 have stopped spawning wither skeletons and blazes, they have been thoroughly search and the number of zombie pigmen in the fortress only grows until the point where the mobs could not spawn any way. We have tried reloading the chunks and this process has been demonstrated numerous times. The fortresses are not modified heavily and resemble their raw structure.
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If you can reproduce this on a new world (downgrade to 1.7, then upgrade to 1.8 and see what happens), that'll be easier.
Can you also ask the owner if he's using the vanilla server jar, or something else?
@[Mod] Mustek scratch that, his response was that he doesn't give 2 shits, sorry to waste your time, thanks any way.
When you say the Nether was "reset", I assume that means the region files were erased. If you do this without deleting the relevant structure.dat files (Fortress.dat in this case), it can lead to strange consequences.
Are you sure the world was spawned in 1.7 and not before 1.6.3?