A weapon +3/+6 vs Constructs like you described will give you a +6 bonus to your To Hit roll, and deal +6 damage to constructs. Against everything else, it deals +3 extra damage and is +3 To Hit compared to a regular weapon of its type (warhammer).
Upgrading it by +1 probably makes it +4/+6 vs Constructs, giving you +1 To Hit and +1 damage against non-construct enemies.
I'm not sure if a +3/+1 vs Undead weapon would count as +3 or would actually give you a relative penalty facing the dead ones though.
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