(Edited)
Could you give me some more info on the products leading up to wax e.g what compound/polishes were used on the paint? Did you polish the car by hand or by machine and if so what type of machine was it a rotary or Dual-action? and finally what polish pads did you use?
But here's a general fix.
Holograms in the paint aren't caused from the wax unfortunately, it's from the polishing machine generally they're very easy to remove so don't worry you don't have to start over.
Polishing a car and most thing is essentially using finer scratches to remove larger scratches, and a hologram mark is/are lots of fine scratches from the polishing process commonly found in the middle to late stages of polishing from the lighter cutting polishes, so to remove them you need something with a finer cut or alternatively you can fill them with a 'glaze' but the length it lasts varies, so I'll talk you through the proper way to fix them and let you decide how you want to approach it.
Here's two methods one that will cost £10 or so and the other free but might not work.
Method 1To remedy holograms you can either buy a dedicated light swirl and hologram remover, use a light cutting polish (Meguiars 205, Rupes Yellow, Koch Chemie M2.01 (purple) are a few examples), using these will give you 'safer' bet that they'll remove the holograms as opposed to my next method, but yeah use these give a couple of slow passes on the affected areas on a low speed 1-3 with a Foam finishing pad or Microfibre Finishing Pad. Then you just have to reapply the wax and that's you sorted.
Method 2 This method will be effectively watering down some of the polish you were currently using, to reduce to 'bite' or cutting/correcting ability it has. You take your polishing pad and wash it under warm water, and then dry it then take your polish and apply it (2-4 pea sized amounts) to the pad rubbing it evenly across the pad and working it into the foam/microfibre, then you'll wash the pad lightly you're not trying to remove all the polish in it just want to water it down. Now you can go and polish the holograms, it's not a safe bet but it's the cheapest way as you've effectively made yourself a finishing/jewellers polish (depending on the severity of your existing polish)
Bonus point;
You can also mix and max polish/compounds and pads to change the severity of the cutting and polishing action eg if you take a severe cutting compound like Meguiars M105 Ultra-cut and put it on a Finishing Pad you'll get a strong-medium to light medium cut.
Glaze;
If you opt for this approach I recommend Poorboy's Black hole or White Diamond glaze's depending on your car colour, these will alter the colour of your car ie on a white car the Black hole will darken the paint toward the blue scale and the White Diamond will lighten it to the yellow scale, it's easily removed so don't think it's permanent it's just for people that worry that their white paint has turned yellowish like BMW white.
Hopefully these will work, but give me the info as above and I can help more
