Currently, there is no auto-pickup option which works for lockpicks, flint&steel and torch archetypes. This is probably a mix of client and server modification.
This is as of latest svn, 14025.
This would probably consist in adding a Misc checkbox for auto-pickup and have the types defined by hand on the client/server if needed, since the types are different for all of them.
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forgot to add, but holy symbol is also not picked up by any option currently available.
Holy symbol will now be picked up as part of the 'magical device' category, as well as all skill tools.