It's a tough question because you have to pick between two unsafe options. The Ledger can hardly be called a trusted brand anymore with everything that has happened in the past and with the things that will probably happen in the future. On the other hand, keeping your bitcoin in a hot wallet and on a device you use for various online activities isn't smart either. The only thing worse is using a CEX as your "wallet."

This is what I would do.
I would reformat and install a clean OS on it. I'd install Electrum and use that as my go-to bitcoin wallet. After that, I wouldn't use that laptop for anything else again as long as I have my keys on it. If you have altcoins/shitcoins where there are no quality open-source software available, I would keep them in the Ledger. What's the alternative? Trust Wallet? Exodus? It's all crap, closed-source, and requires trust. You might as well use the Ledger for bottom-barrel alt/shitcoins.