Nuke it before it reaches orbit. Only way to be sure
Warn it that it's in our space and will be destroyed if it doesn't park in orbit and submit to inspection by astronauts. If it obeys then we can talk. If it doesn't then we kill it. Letting it into our atmosphere at all is a risk that's almost too great to take. Who knows what it's for. Could be a planet killing superweapon, or a terraforming virus dispenser that will turn us all to green goo. In any case, ignoring our requests should be seen as a hostile act until we know more about them.
Hopefully the people in charge of deploying countermeasures aren't this incredibly stupid.
How do you know they use radio? How do you know they even talk? Even if they're just rubber forehead aliens from Star Trek, why would you assume a probe has the equipment to analyze all the things that could be communication and then reply intelligently? Learning a language from your own planet is hard enough, imagine trying to figure out one that evolved from a completely different biology.
There's also no reason to make any assumptions about how their thought process would go. They may have no concept of logic as we know it, they may respond purely on culture and instinct. Maybe them opening their weapons ports is a sign of respect, like a salute? You don't know.
What would you do? You can't just let it in when it's unresponsive to communication attempts. That's beyond idiotic. Any alien species worth their salt should know that. WE would account for that if we sent a probe to an alien planet, so you know an advanced alien species would as well. The assumption is that if you don't build some kind of ability to communicate into the probe then you're either hostile or you won't hold it against the aliens if it gets destroyed.
Imagine it's us sending the drone in. We didn't build any way to communicate into it, and it gets destroyed by the alien species in question. We see that attempts were made to communicate with it on every radio band before it was shot down. Our assumption would be that we were warned, and then fired upon. A completely reasonable response that we cannot hold against the alien species in any way. Time to kick ourselves for not putting an understandable message of peace in there and try again.
When a pitbull bites you do you assume the barking beforehand was a reasonable warning and blame yourself or do you put that bitch down?
If they have the technology to get here, they have the technology to do deal with our silly toys. Of course our first action would be trying to kill them though.
<br />Really? We've launched probes out into the galaxy, do we have the technology to do jack shit if they happen to pass a planet more advanced than ours and get shot down or captured? While we might be able to shoot down or capture an alien probe if given enough time and warning, it's highly unlikely we would have either. It's probable that we wouldn't notice it until it was too close for us to do anything except hope it was friendly.
Would be ironic if we captured it only to find it about as technologically advanced as one of the deep space probes we launched in the 1970s.