Good thing would be to call for friendly transport ship to move them to nearest base (or designated base that will accept so many slaves, mostly decided by faction RP).
Smuggler then should receive its punishment (by paying a fine)...
However, what happens if smuggler tries to run, and doesn't want to release the slaves? Some deadly force must be used on him, but destroying him should really be last resort. When near destruction smugglers may change their minds about releasing slaves...If not...well...innocent will die