If it's on your 1099 (and you agree those transactions which sounds like you've confirmed), that's what you need to report. I've always manually input for years, never found the import worth the hassle. Scrolling the forum this year it's littered with similar import issues, things missing or technical problems, and common theme is folks well versed in the import feature saying they've never had these sorts of problems before.
You're probably better off just deleting whatever 1099-INT mess the import created and manually inputting it cleanly. Or put an additional one in for these items, it doesn't matter how you split up the 1099s as long as the totals add up.
