Hey @marianoc
It looks like you've found yourself in the wrong community forum. This area is for Meraki Go, which does not support VPN.
Now, to help you out with my speculation (for what it is worth), the fact you have access to certain resources and not others is actually a good sign. Your VPN connection works, and that is the hard part.
If you are using a full tunnel VPN, you are going to be held to the standard of the firewall on the remote network. Perhaps it is, intentionally, blocking the traffic you are sending. In this case, you can use what is known as a split tunnel, which is where you only send traffic over the VPN for say JIRA and your repositories, but the rest of your traffic will still use your normal internet connection. That'll probably fix it.
Now how you go about a split tunnel configuration on linux is going to vary a great deal, and I'm not quite sure how you would go about it in your environment.
Looking for the enterprise forums?