Which is worse for the end product, time at temp, or more potential weld failures.
Obviously many things COULD go wrong from either viewpoint.... but, as long as your technique is sound and you produce good welds, I personally feel that "time at temp" gives far more chances of producing something inferior, versus the potential for weld failures.
Many times thinking "outside the box" will be very helpful. In the case of "folding", I discovered a couple of things that boosted my success rate to nearly 100%.....
1. Once you weld the initial stack, draw it out into as long a bar as your comfortable handling....... allow it to slightly cool down.
2. Grind both side of that bar off....using an angle grinder. And here's the "trick"..... make sure the grind marks from the angle grinder run ACROSS the billet/bar, NOT LENGTHWISE...... and that you slightly "scarf" the edges (I just drag the running angle grinder down each edge at an angle) regardless whether you're using borax, anhydrous, diesel, kerosene, or whatever flux....those grinding marks that run across the bar create tiny channels that allow any flux, slag, or anything else you don't want in there to be forced out of the welds.
Finally, don't get stuck in the mindset that you have to fold a billet in half. Often times I will create a initial billet of 50 layers..... draw it out, grind off both sides, then divide and cut it into equal length (usually 4-6" for me) and then restack those pieces. For example, say I take 6 pieces @ 50 layers each and restack..... I'm at 300 layers with TWO welding sequences. More often then not, I will have 5-6 FEET after the initial weld/drawing, and have enough cut pieces to make 2-3 billets/bars.
Hopefully that all makes sense.