This can be fixed by copying the two profile directories you're using (/usr/lib/tuned/network-throughput and /usr/lib/tuned/network-latency) to /etc/tuned and changing the sysctl section to only contain enabled=false. Here's it working:
root@cr01a-vyos:~# diff /usr/lib/tuned/network-latency/tuned.conf /etc/tuned/network-latency/tuned.conf 13,16c13 < net.core.busy_read=50 < net.core.busy_poll=50 < net.ipv4.tcp_fastopen=3 < kernel.numa_balancing=0 --- > enabled=false root@cr01a-vyos:~# diff /usr/lib/tuned/network-throughput/tuned.conf /etc/tuned/network-throughput/tuned.conf 10,16c10 < # Increase kernel buffer size maximums. Currently this seems only necessary at 40Gb speeds. < # < # The buffer tuning values below do not account for any potential hugepage allocation. < # Ensure that you do not oversubscribe system memory. < net.ipv4.tcp_rmem="4096 87380 16777216" < net.ipv4.tcp_wmem="4096 16384 16777216" < net.ipv4.udp_mem="3145728 4194304 16777216" --- > enabled=false