Hey Mal,
When you're running a trace, the biggest thing to remember is that the final hop is the most important. It may be concerning that you see some packet loss in intermediate hops (and not in a command line ping/traceroute), but really this may just be a router downprioritizing TTL expired packets, or some other small little hitch (rather than a malfunctioning router). However, as long as that packet loss you're seeing in that hop isn't carrying through to your final destination, you have nothing to worry about at all! We've got some handy information on this article about this particular issue:
https://www.pingman.com/kb/5Feel free to let us know if you have any other questions!
Regards,
Hayla