I can only speak from my own experience, but here's my story:
I bought my LX 5 years ago, and immediately put some real tires on it and started wheeling it. It had 160K miles and only 2 previous owners, who maintained it meticulously and never abused it. Anyway, about a year into ownership, I noticed small cracks in the cv boots, and wanting to avoid any problems, I bought the Toyota OEM reboot kit. I had never done any axle work before, but I had the FSM and got to work removing and taking apart the CVs to clean, grease, and reassemble them. Well, when I opened up the joints, I discovered that my axles were not OEM. Instead of the Rzeppa design, mine were a tripod type joint. I had already put so much work into them, that I decided to just reboot these with the Toyota boots. My aftermarket CV tulips have a smaller diameter than stock, so it took some work to get the boots to tighten around them with the clamps supplied by Toyota. Also, I used the entire tube of grease in the kit, not thinking about my joints being smaller, so I did have some overflow squeezing out of the boots after a test drive.
But so far, I've put 70k miles (probably 20k+ offroad) and 4 years on these aftermarket CVs, and have yet to experience any failure or issues. If I had more money to spend on this type of thing at the time, I would have just bought new OEM CVs for peace of mind, but because I didn't, I'm a lot less afraid of aftermarket axles than I used to be.