Sorry to break the bad news, but if the alcohol you're relating to is (or contains) methanol, you shouldn't use MSR (or any aluminum) fuel bottles:
Originally Posted by vik
"One of the drawbacks of methanol as a fuel is its corrosivity to some metals, including aluminium. Methanol, although a weak acid, attacks the oxide coating that normally protects the aluminium from corrosion"More details here.
It may take years to encounter any problems with the bottle itself, but the surface chemical reaction that will occur inside the bottle might yield nasty byproducts that will dissolve into the alcohol, which you'll then burn in your stove...
I've always found that the best way to carry methanol was in the plastic bottle that it comes in when you buy it. If you buy it in large quantities, you can use fondue fuel bottles.