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Medics and Engineers can deal with vanilla loadout, but they have alternatives they may want to use (wrangler, kritz).

Soldier, Pyros and Heavies don't left the fort without Axtinguisher, Equalizer and G.R.U. though.

The spies I "see" now are either Sarahan spies or Enforcicles. Vanilla works but I just not see spies using it anymore.

Demoman vanilla, even after the nerfs, is still powerful. Other classes uses vanilla loadouts too (scout for example) but nobody ever cried about Scout being overpowered.