Strangely enough despite programmable matter and gimmicky transporters, everything about the TNG era seems more advanced than the 32nd century. Note how Data immediately locks out the main computer in First Contact "with a fractal encryption code. It is highly unlikely that the Borg will be able to break it".
Meanwhile the supposed combination of the Sphere Data and 32nd century tech can't even stop Osyraa and her goons.
TBH, this is a typical Trek plothole that I've seen in almost every Trek series, where a menacing but relatively weak villain alien somehow managed to outsmart and defeat a much superior Federaton ship. Whenever I rewatched TNG's "Rascals" I always scoffed seeing why did the Enterprise-D, the most advanced Federation ship of its time with 1,000+ crew members and most advanced weapons tech, couldn't ward off an assault from a bunch of Ferengi ships (it's the Ferengi for goodness sake, c'mon. Couldn't you just blow up their ships to kingdom's come with one or two well-targeted photon torpedoes??)

And it took a de-aged Picard, Guinan, and Keiko (all turned into young teens due to a transporter mishap) to save the day rather than adult officers like Riker, Worf, etc. As much as I enjoyed the comic aspect of the episode, this episode always left me wonder about how the D would've fared if it's being attacked by the Klingons, Romulans, Cardies, or more menacing aliens out there, if it was easily defeated by an alien race that at that time (prior to its DS9 rehabilitation) was considered to be the "comic relief" villain of the Trek-verse

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