Why not set an Attunement time?
You have to spend an hour focusing on the Lego to use the Fuction (except for Weapons).
EDIT: Clearly this would only apply to Portables and Stationary that are wielded by a Huge or bigger character. Stationary Models that are set in the ground or a vehicle wouldn't need to be attuned.
It might not work on Crafting but that's a niche the BrickBuilder will be filling himself with ease.
(Maybe a feat letting a BrickBuilder use 10xBricks instead of GP to Craft nonLego and another to let BB count as having all spells and CL of a Wiz for the purposes of Crafting?)