It's actually not that hard to establish
Go !
considering that Voyager and DS9 had already been cancelled by the time "Broken Bow" aired and Nemesis hit theaters barely a year later.
Canceled ? Didn't they just end their run at 7 seasons ?
In particular, the experiment with Archer's Beagle is a double reference, since it basically duplicates the circumstances of Emory's so-called sub-quantum transporter without the need for going into a whole different episode (and transwarp beaming itself seems to be derived from it).
I'm sorry but that's a stretch. It's a reference to Enterprise. Count it: one.
The crew uniforms on the Kelvin are another big one; the jumpsuit style is basically an update on the old 22nd century Starfleet uniforms, meant to show a transitional state before the shirt and slacks look 30 years later.
Which is NOT a reference to Enterprise.
Same again for the pop-up phaser turrets on the Kelvin, which the FX team explicitly mention as being inspired by the weapon systems on NX-01.
We didn't see weapons turrets on Enterprise, if memory serves. Do you have a link for that ?
So we're still up to 1 reference in ST09 and 1 (the models) in STID.
And as I said: the entire TOS crew, their ship, technology and backdrop is recreated in those movies. That alone, not counting Khan and the other stuff, is more referencing than Enterprise. But if you want to redefine "reference" to exclude the main setting and only include off-hand stuff, be my guest.