The problem isn't Latin, the problem is how you use it. Nobody forced you to sometimes use C when you mean K. There are many languages where these letters don't overlap.
Nobody forced you to use both PH and F for the same sound. Why even use PH? It's not like anybody cares if that particular word was stolen from Greek or not. And if some people do - they can check it on wikipedia. Make it all use f and be done with it.
The whole too/two/to situation is ridiculous. Ridiculous spelling is also ridiculous. Why put "o" before only one of these "u"? Either put it before both or none... Also - beautiful. Really? Eau?
And why sometimes there's one "l" and sometimes there are two? Full, but plentiful. WTF?
If you bothered to refactor the language every century - English would be perfectly reasonable now. Instead the whole world is stuck with learning centuries of design debt to communicate.
I guess keeping compatibility over long periods of time can have a lot of value, for OSes and languages alike...