The EU is in an unfortunate situation due to 1.3 billion people speaking English, but also due to member states being too slow in making their governments fully digital. Speaking from experience, it is easier to set up and run a British limited company remotely from Prague than doing so with a Czech company from its own capital.

As someone who has done business on Malta I would not recommend it. Even opening a bank account is a pain on that island. I wouls not want to operate a nob-profit there.