The most important aspect of this design is that your BPDUs can flow freely through the MX. The easiest way to achieve this is to leave the default VLAN 1 as native VLAN in place.
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I second @PhilipDAth, we have constant master failover issues at sites with cross connects and Meraki switches. If you have a Cisco IOS stack then you might be luckier. We physically cross connect and then soft disable the connection at the switch end for each secondary connection.
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