You should really do a bidirectional calibration after adjusting the head height, it's not absolutely necessary but print quality will improve somewhat.
Actually the JV3 is actually capable of storing two separate sets of calibrations, one for THIN and one for THICK it's just that there has always been considerable misunderstanding (thanks Mimaki!) of how to tell it which one to use. The JV3-SPII machines (75/130) actually have a sensor inside the carriage that can see what position the lever is in and choose the appropriate set of calibrations. Unfortunately the standard "SP", which is what most people have, does not have this sensor and so requires the user to tell it what position the Heads are in.
Here are the steps I use to get this to work:
1. Load the material you most commonly run in the "Thin" setting
2. Physically set the Head Carriage in the "Thin" position
3. Go FUNCTION => MAINTENANCE => PRINT ADJUST
4. Select "THIN"
5. Read the resulting print and enter in the calibrations.
6.
Now here's the important part... go FUNCTION => SETUP => TYPE 1 =>
HEAD HEIGHT - Set this to
THIN
7. Stick a piece of masking tape, sticky label etc next to the Control panel and write "THIN - TYPE 1" on it
8. Load the material you most commonly run in the "Thick" setting
9. Physically set the Head Carriage in the "Thick" position
10. Go FUNCTION => MAINTENANCE => PRINT ADJUST
11. Select "THICK"
12. Read the resulting print and enter in the calibrations.
13.
Again, here's the important part... go FUNCTION => SETUP => TYPE 2 =>
HEAD HEIGHT - Set this to
THICK
14. Add "THICK - TYPE 2" to your sticky note next to the control panel.
Now changing the Head Height is as simple as changing from "Type 1" to "Type 2" or vice versa. The added bonus of this is that if you always run Pressure Sensitive on Type 1 Banner on Type 2 then you won't have to mess around with your Media Comp nearly as much when changing materials either.
Hope this is useful to some of you folks out there