Fixed at about 10am this morning, as soon as we saw this. Basically, there's a functional (internal) difference between old bundles (the ones where you get a discount if you own certain items) and these "bonus" bundles, which are new, and where ownership of any of the "core" items results in a lockout. It was never our intention to lock people out in this way; just a mistake in the way we configured it as it's pretty new for the team.
EDIT: there will still be some of these types of bundles where a "core" item may be something you already own and which will disqualify you from a bundle you'd like. We are watching that feedback and are trying our best to balance how we structure these things.