When designing a battery, there are goals in mind... Things like energy density per weight and volume, safety, reliability, storage life, power density, internal resistance, etc.
Scientists will tinker for years to reach certain goals. Voltage is actually pretty low on the list of goals because devices can be designed around different voltages, and more importantly, WILL BE if the new chemistry is worth designing a product around.
Products are designed around batteries, not the other way around. 3.7V lithium cobalt cells, were designed to have the highest possible energy density for portable electronics. Laptops primarily. The resulting voltage of the cell chemistry is more happenstance and result of the best possible combination of materials they could come up with. The person who decided to put the lithium cobalt chemistry into a 17mm by 67mm cylindrical can probably wasn't even aware of the possibility that someone might someday slap it in an aluminum tube to power a flashlight.
The point is, nobody is going to fund a decade long research project to discover a chemical combination that produces ~6V for the sole purpose of replacing a pair of 3V lithium primary cells for a few flashlight enthusiasts.
sorry
-Eric