Some faves:
Porcupine Tree: "Sound of Muzak" from In Absentia
Porcupine Tree: "The Start of Something Beautiful" from Deadwing
Porcupine Tree: "Nil Recurring" from Nil Recurring, a sort of ep companion to the Fear of a Blank Planet cd
Porcupine Tree: "Even Less" from Recordings (the extended cut from the Recordings rarity/b-side collection, not the studio cut from the Stupid Dream CD)
Porcupine Tree" "Mother and Child Divided" bonus track on some Deadwing releases (DVD audio, I believe)
Steven Wilson's (from PT) Grace for Drowning CD is near brilliant.
Gavin Harrison from PT is a monstrously talented but incredibly tasteful drummer; his odd-meter work is outstanding. Check out his lesson DVD for some heavy theory on the rhythmic displacement, polyrhythms, etc (I'm not a drummer but love it)
King Crimson: "Eyes Wide Open" from The Power to Believe
King Crimson: "Frame by Frame" from Discipline
If you want some pop with just barely a hint of prog, check out Toy Matinee, or Kevin Gilbert's (R.I.P) solo album Thud. Brilliant thinking man's pop minus the pretension.
Trey Gunn (bassists/stick player/Warr guitarist for King Crimson) solo work:
Trey Gunn: "Sozzle" from The Joy of Molybdenum
Trey Gunn: "The Fifth Spin of the Sun" from Music for Pictures
PSP (Phillips, Saisse, Palladino): Bela Boogie... free tune I downloaded, I think from their site. Very kickass, non-boring fusion
Honestly, I've been listening to less prog over the years (a lot of 'genre' styles tend to repeat and get stale)... it's amazing how many cool meter things are out there in the mainstream, or at least *were* out there, i.e., something like Sting's "I Hung My Head" from Mercury Falling.