Yes, it’s grammatically correct to say “It’s not my company’s cup of tea,” and it would generally be understood, but it’s slightly unusual to use "cup of tea" for a company. This phrase is most often used to describe an individual’s personal taste or preference.
For a company, you might instead say something like:
“It’s not in line with my company’s focus.”
“It’s not something my company specializes in.”
“It’s not a priority for my company.”
These options sound a bit more natural when referring to a company's preferences or areas of expertise. However, if you’re aiming for a light, conversational tone, your original phrasing can work too!