A couple of thoughts.
1) Always make sure that the stove pipes and stove are properly protected from any flammable material....even if it's insulation that will melt and gas off.
2) While the outside stove pipe greatly reduces the heat coming off the inside stove pipe, the outside pipe still gets hot. I'd remove your chimney stack, assure there is a fireproof insulation between the ceiling and the roof around the chimney hole. I'd also make sure you remove any paint or silicone that is in direct contact with the hot chimney, and then use appropriate sealants for the chimney flanges.
3) Two burns outside may seem like you've burned off a lot of the stove gases, but when you put the stove in a confined area, it would not surprise me that you're still getting some off gassing and it's a stronger smell indoors.
I can't remember who the couple was, but they burned down their entire bus by not doing things properly. Do your research, ask professionals, but do this right so you stay alive.