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Generic Scan Tool clear command procedure, 2006-2007 Civic
(Straight from the 2006-2007 CIVIC Service Manual, vol. 1 & 2)

If you are using a generic scan tool to clear commands, be aware that there is only one setting for clearing the ECM (Engine Control Module), and it clears all commands at the same time (crank pattern learn, idle learn, readiness codes, freeze data, on-board snapshots, and DTC’s). After you clear all commands, you then need to do the following procedures, in this order, to reset the ECM and related component codes:

ECM Idle learn procedure

1. Ensure all electrical items are off
2. Clear codes with generic scan tool
3. Turn ignition switch to on, wait 2 seconds
4. Start engine, Hold engine speed at 3,000 rpm without a load until the radiator fan comes on or until the engine coolant temp. reaches 194°F
5. Let the engine idle for about 5 minutes. Note: If the radiator fan comes on, do not include its running time in the 5 minutes.

Crank pattern learn procedure (do immediately after the ECM learn procedure to save some time)

1. Test-drive vehicle on a level road: Decelerate with throttle closed from an engine speed of 2,500 rpm’s down to 1,000 rpm’s with the transmission in 1st gear.
2. Test-drive vehicle again on a level road: Decelerate with throttle closed from an engine speed of 5,000 rpm’s down to 3,000 rpm’s with the transmission in 1st gear.
3. Repeat steps one and two several times.
4. Shut car off
5. Turn ignition switch to on and wait for 30 seconds.
6. Return key to off position

Setting readiness codes

1. Start the engine and let it idle for 1 minute. Readiness code for Air fuel ratio sensor heater should switch to complete.
2. Test-drive the vehicle under stop-and-go conditions with short periods of steady cruise. Decelerate with closed throttle for five seconds. After about 5 miles the readiness codes should switch to complete for Catalytic Converter, EVAP control system and Air fuel ratio sensor monitor


Notes:
1. The ECM stays on for up to 30 minutes after the ignition key is turned off. NEVER disconnect any ECM connector without first disconnecting the negative battery cable
2. The DLC (Data Link Connector) is located under the dashboard by the drivers right leg