That's pretty fortunate. Personally I would pull the whole thing off until you had the right parts just in case. There is not a lot of room there to account for bumps and vibrations. But that is up to you.Shock is good. It clears the bolt on tie-rod just barely. How can you help? Btw, I have the Fox tie-rod mount coming. Was fixing to order that rockjock kit.
The metalcloak tie rod clamp looks fine there is no reason to buy a new one. Not sure what the rockjock kit is but you probably don't need that either.
I'm assuming you used a spacer between the tie rod clamp and the shock body mount for two reasons. First being the bolt was too long and it was bottoming out on the tie rod and blocking the shock shaft. The second is that you wanted to get the tie rod end of the shock closer to the same height as the axle side end.
I think you should solve that second problem by ditching the metalcloak axle side bracket. It sits up a lot higher than the track bar bolt which is where that end of the shock is usually mounted. You can use this bolt:
Synergy Jeep JK / JKU / JL / JLU / JT Stabilizer Mount Stud | SYNERGY MANUFACTURING (synergymfg.com)
Then ditch the spacer between the shock body and tie rod mount, and buy a shorter bolt that looks similar to what came with the fox ATS. The MC clamp is tapped for M12-1.75 so that's what you will need. If that's what the Fox bolt already is then it saves you a trip to the hardware store.
You will also need to loosen the small bolt on the shock body mount and flip the shock body so the res is on top.
Alternatively, if you are completely happy with how everything is with the exception of your axle side rod end floating in the bracket, then you just need to get some 3/4 OD 1/8 wall aluminum tube. It's like $5 per foot, you can cut it easily with a hack saw and file it down to make home-made spacers.