Didn't notice this till I was Enchanting some high level gear.

I made a suit of gear that had +40% one handed damage and +40% Bow damage boost on 4 or 5 pieces. My Ebony Bow and my Skyforge Steel Sword both jumped in damage (sword went from 63 to 155, bow went from around 86 to 220) however I noticed that my Skyforge Steel DAGGER stayed at 59 both with and without the gear. I also check other daggers, and all seem to be similarly unaffected by the bonus. (I'm also thinking that daggers do not raise the one handed Skill either, but I'll have to keep checking that)

Is this a known issue, just me, or the way it was meant??

It's known. Daggers DO improve one-handed, DO benefit from the perk-specific damage bonuses, but not from the increased one-handed damage enchanting effect. Since your only really good reason to use a dagger is with the stealth perk, 15x damage with a good dagger can 1-shot almost anything you get a sneak attack in on, 30x almost certainly can (certain items grant a double backstab bonus, spoiler avoidance).

Almost certainly intended.