I don't know about History and Classical Civ, I wouldn't think there's a problem, but don't worry about maths + fm. If you're applying for any mathematics or adjacent course, they will be recognised as distinct A-levels and you don't have reason to worry.
To talk about the edge cases a bit for completeness. The only degrees that I know take an issue with this (off the top of my head, I would have to check) is LSE's accounting and finance and some medicine courses. (which you wouldn't do anyway) There are probably others, but no maths/physics/CS/etc. courses will have a problem with it. This would only even be a problem if you dropped one of the non-maths A-levels. An even more obscure edge case: some Cambridge colleges exclude Maths from their offers and only offer on Further Maths and the other 2, but since you're not taking any third/fourth subjects that would be relevant to a science degree this almost certainly wouldn't happen.