You must mean Central Japan International Airport [NGO], nicknamed "Centrair."
If you hope to get a Japan Rail Pass, then exit Meitetsu at Meitetsu Nagoya Station and walk to Nagoya Station of JR-Central.
If you hope to go with regular tickets, then it sounds better to make a Meitetsu - JR transfer at Kanayama Stations (adjoining in the same building).
The time for getting through immigration procedures (and customs) is not predictable;
if your flight is not delayed and everything is done smoothly,
then you will catch a Ltd. Express train to reach Takayama Station at 13:07 or at 14:16.
Central Japan International Airport Sta. of Meitetsu
| 32 min on a Ltd. Express, 43 min on a Semi Express;
Kanayama Sta. of Meitetsu
| about 25 min: for exiting Meitetsu through one of Meitetsu Line Ticket Gates,
| purchasing JR tickets at a ticket office near JR Ticket Gate,
| entering JR through the gate and catching a train;
|
http://english.jr-central.co.jp/info/station/kanayama.htmlKanayama Sta. of JR-Central: Track 2 (shown in green in this map)
| within 5 min on Chuo Line;
Nagoya Sta.: about 10 to 55 min for changing trains
| about two and a half hours on a Ltd. Express;
Takayama Sta.
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