The '90s WotWs mention made me think... What was that early 2000s (or maybe late '90s) series where the alien race has arrived, with all their bio-tech building tech. The protagonist is a cop-type who is brought in to do human-orientated security tasks for the Aliens and is
apparently controlled by them, through their alien-tech (he's got a ruthless colleague/boss who
is brainwashed), but in actual fact he's still got his self-control having been given a fake 'treatment'/implant/whatever, and the reason he's
doing such deep cover is something to do with losing his wife and daughter (I think). This also is part of the 'proof' of his pretended conditioning, in that he (as far as the aliens are concerned) doesn't care that this was probably the Aliens' fault, for some reason. (If memory serves, the other security guy had caused their deaths as a "means to an end" bit of subterfuge/mental power-play, to persuade the main guy to join in the first place.) As part of his official job, and as a badge of his office, he has a biotech-style "wrist-blaster" thingummy, IIRC.
He works under an (apparently, or at least relatively) 'pro-human' alien, but has to deal with more sceptical ones. There
may have been one of more aliens actually complicit with the human 'rebellion' (most humans don't know they
should be rebelling, but the technician who faked his conditioning is probably one), and at some later point in the series there's an active 'rebel headquarters' (for a while) accessed from a church crypt, and the properly-brainwashed human agent/colleague may well have been released from the mind-control at one point late on in the series, too.
One plot-point has people going 'missing' from a matter-transporter type mass transit system, the individuals being sent to the far side of the moon instead of arriving with their passenger-group at their intended terrestrial destination. Another story-arc point might be that there is a
bigger bad out there than the (not so) benign alien visitors we see, for which humanity is being prepared (in this rather underhanded manner) to deal with. Or are we being tooled up to be the foot-soldiers for the 'good' aliens in their war? Whatever, the 'bigger badder' might have been something with non-corporeal energy-base forms[1].
Google-Fu failed me, and I
even tried to TVTropes, to identify this one's name (from the vague memory of having "alien building-scale biotech and mind control by a supposedly benign visiting alien species", etc), but nothing (other than the other
usual suspects to contain these various themes) seems to be sitting there in the Live-Action TV sections, or related.
Had the air and production qualities of one of those "supposedly American series actually produced in Canada", but then that's probably 90% of the ones that ever got made during that period.
(Oh yeah, and Buck Rogers... All that roller-skated-dancing-with-neon-lit-flexible-pipes, in their off-time. Classic "The Future Is Disco", from that era of TV....
)
[1] Which is logical enough. When you've got a biotech-heavy race as pro/antagonist, there's several possibilities for who/what they're against (if it isn't "just like them, only nastier"). One is that the foe is entirely mechanical or at least biomechanical (such as arose, albeit reversed, when the Borg were given their Species 8472 'nemesis'), but enemies of "energy", "thought" or "spirit" are another way of making a distinguished difference in 'philosophy' between two alien factions.