It's still possible not all of "Destiny" might be overwritten. From what I've read so far there's been no signs of an active Borg collective. If that holds true you could potentially say all Borg still collected by the hive mind were taken in by the Caeliar, and they just left freed Borg unaffected. It's a slight change but it doesn't negate the whole shebang necessarily (unless the Borg as a collective have appeared or have been noted to still be a threat).
The characters in Picard have spoken of the Collective as something still presumed to be active in the galaxy, and the technology on the Artifact is still potentially hazardous, with the last assimilation having taken place c. 2383 according to the warning sign.