There will be a different scale length Mark. if memory serves (it often doesn't) the ES will be a G company scale 24 9/16" or 24 3/4" and you nylon is probably a 25" or 25.5" scale length.
One of the kits i have battled with was an orphan IB-1 that someone had tried to convert to 24 fret based on G company scale but the kit itself was set up for 22 fret F company scale length. That was a barrel of fun until i figured that out and made a new board with the right fret spacings.
As you say, as long as you set you floating bridge in the right spot for the scale length of the guitar, all will be well. If you don't its gong to sound like the alley cat chorus on goofballs.
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