Just a note, a Master's in Chemistry is not common. Terminal Master's programs typically do not exist for chemistry. Most programs admit for PhD, and if you cannot finish the PhD, SOME schools give an option to graduate with a Master--which can be an indication to future employers that you could not handle the PhD and quit. Some Master's may be awarded alongside Bachelor's degrees after addition (usually 1 year) of study from the undergrad institution.
That said, the industry experience sounds great and GRE scores are respectable. Find some professors at your prospective schools, tell them you're interested in their research, and ask for any advice for admission to their program.