A. Since we are not talking about long-term storage here, I think you can go ahead and use them. The PE film that Ziploc bags are made of does deteriorate and crumble over time. If, however, you store the Rubbermaid boxes as you propose to - in a closet in a climate-controlled area for a relatively short time, you'll be fine. The archival tissue will act as a buffer for environmental contaminants (including the smoke) and will reduce the possibility of moisture damage.
Cigarette smoke is insidious - and PE film is not the greatest gaseous barrier, so you might want to use the freezer variety or double-bag the regular type. When your order ships, I will see if I can scare up some PP film or Mylar bags for you - the PP sleeves we carry now are probably not large enough - but we used to carry larger sizes and there may be a few I can locate.
Many collectors use silica gel packets to guard against odor - and we do carry those. If you use them. Use just one or 2 per model, as it's never a good idea to dry paper products out too much. Activated charcoal in a closed container (find online or in aquaria sections of pet stores) works quite well as an after-measure - in case you already have a few that are aromatic.
Let me know if you have any further questions.