I know this issue has been resolved but maybe this link could help future comers. It is basically what has already been confirmed hear. Per-Tunnel QoS for DMVPN http://www.cisco.com/c/en/us/td/docs/ios-xml/ios/sec_conn_dmvpn/configuration/15-mt/sec-conn-dmvpn-15-mt-book/sec-conn-dmvpn-per-tunnel-qos.html#concept_F989BD3FC8CA49B6859F29CA3F1C07A6 Restrictions for Per-Tunnel QoS for DMVPN On ISR 4K series routers, you have to enable the appxk9 license for per-tunnel QOS feature. If you do not enable the appxk9 license, the commands are accepted but the QoS feature will not be enabled on tunnels.
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