I'm currently running version 1.0.2 of the modpack, and I discovered a rather bad interaction between the Minecolonies mod and the Carryon mod. Normally, you can't pick up the colonists, since shift right clicking them just opens their inventory. But, you apparently can pick up their entity while they're sleeping. And if you do this and set them back down, they flicker briefly before returning to the position and job they are supposed to have. However, they also lose their entire inventory.

I only noticed this as I was filling up one of my Builder's inventory for a new project while they slept, and realized I'd forgotten to put in a single item needed. I went back and accidentally picked him up while trying to access his inventory. When I put him down and went to put the item in, all the previous items I'd just given him had disappeared.