OK, I'm much closer today but things are still not quite right. Here's the gist:
-I found that the chips were getting pretty hot, so I added a heatsink and fan.
-I adjusted the current pot (there's only one on my board) per Riley's suggestion, and that did seem to fix the stuttering. The green axis light will sometimes stay lit on X and Y, but it no longer flashes.
-I enabled power management on the Z axis since it is on a leadscrew, and there is no indicator light after finishing a Z command.
-I can send Gcode to the board, but I'm consistently missing steps on the X and Y axes.
I think either my JM settings in the firmware are still off or I have not actually set the current correctly. So my questions are:
-Is there a clear indicator of what the current pot is set to, and which turning direction increases current? I just tried randomly dialing it up and down today to see what happened, and tweaked it until the stuttering was no longer happening.
-What is a reasonable Max Jerk setting for a machine configured in inches? I reference the wiki in originally setting mine to 2,000,000 in/min^3, but Alden mentioned that this is too high.
Here's my updated config settings:
Motor 1 - Mapped to axis 0 [0=X,1=Y...] $1MA0
Motor 1 - Step angle 1.80 degrees $1SA1.80
Motor 1 - Travel/rev 1.600 inches $1TR1.600
Motor 1 - Microsteps 2 [1,2,4,8] $1MI2
Motor 1 - Motor polarity 0 [0,1] $1PO0
Motor 1 - Power mgmt mode 0 [0,1] $1PW0
Motor 2 - Mapped to axis 1 [0=X,1=Y...] $2MA1
Motor 2 - Step angle 1.80 degrees $2SA1.80
Motor 2 - Travel/rev 1.600 inches $2TR1.600
Motor 2 - Microsteps 2 [1,2,4,8] $2MI2
Motor 2 - Motor polarity 1 [0,1] $2PO1
Motor 2 - Power mgmt mode 0 [0,1] $2PW0
Motor 3 - Mapped to axis 2 [0=X,1=Y...] $3MA2
Motor 3 - Step angle 1.80 degrees $3SA1.80
Motor 3 - Travel/rev 0.063 inches $3TR0.063
Motor 3 - Microsteps 4 [1,2,4,8] $3MI4
Motor 3 - Motor polarity 1 [0,1] $3PO1
Motor 3 - Power mgmt mode 1 [0,1] $3PW1
Motor 4 - Mapped to axis 2 [0=X,1=Y...] $4MA2
Motor 4 - Step angle 1.80 degrees $4SA1.80
Motor 4 - Travel/rev 0.100 inches $4TR0.100
Motor 4 - Microsteps 8 [1,2,4,8] $4MI8
Motor 4 - Motor polarity 0 [0,1] $4PO0
Motor 4 - Power mgmt mode 1 [0,1] $4PW1
X axis - Axis mode 1 [0-10] $XMO1
X axis - Seek rate 65.00 in/min $XSR65.00
X axis - Feed rate 62.00 in/min $XFR62.00
X axis - Travel hard limit 16 inches $XTH16
X axis - Travel soft limit 15 inches $XTS15
X axis - Jerk maximum 50000.00 in/min^3 $XJM50000
X axis - Cornering delta 0.0020 in $XCD0.0020
X axis - Limit switch mode 1 [0,1] $XLI1
X axis - Homing enabled 1 [0,1] $XHE1
X axis - Homing seek rate 53.15 in/min $XHR53.15
X axis - Homing close rate 0.39 in/min $XHC0.39
X axis - Homing offset -7.87 inches $XHO-7.87
X axis - Homing backoff 0.20 inches $XHB0.20
Y axis - Axis mode 1 [0-10] $YMO1
Y axis - Seek rate 65.00 in/min $YSR65.00
Y axis - Feed rate 62.00 in/min $YFR62.00
Y axis - Travel hard limit 12 inches $YTH12
Y axis - Travel soft limit 11 inches $YTS11
Y axis - Jerk maximum 50000.00 in/min^3 $YJM50000
Y axis - Cornering delta 0.0020 in $YCD0.0020
Y axis - Limit switch mode 1 [0,1] $YLI1
Y axis - Homing enabled 1 [0,1] $YHE1
Y axis - Homing seek rate 53.15 in/min $YHR53.15
Y axis - Homing close rate 0.39 in/min $YHC0.39
Y axis - Homing offset -5.91 inches $YHO-5.91
Y axis - Homing backoff 0.20 inches $YHB0.20
Z axis - Axis mode 1 [0-10] $ZMO1
Z axis - Seek rate 17.00 in/min $ZSR17.00
Z axis - Feed rate 15.00 in/min $ZFR15.00
Z axis - Travel hard limit 3 inches $ZTH3
Z axis - Travel soft limit 3 inches $ZTS3
Z axis - Jerk maximum 50000.00 in/min^3 $ZJM50000
Z axis - Cornering delta 0.0020 in $ZCD0.0020
Z axis - Limit switch mode 1 [0,1] $ZLI1
Z axis - Homing enabled 1 [0,1] $ZHE1
Z axis - Homing seek rate 53.15 in/min $ZHR53.15
Z axis - Homing close rate 0.39 in/min $ZHC0.39
Z axis - Homing offset -1.46 inches $ZHO-1.46
Z axis - Homing backoff 0.20 inches $ZHB0.20
A axis - Axis mode 3 [0-10] $AMO3
A axis - Seek rate 51024 deg/min $ASR51024
A axis - Feed rate 45921 deg/min $AFR45921
A axis - Travel hard limit -1 degrees $ATH-1
A axis - Travel soft limit -1 degrees $ATS-1
A axis - Jerk maximum 50000000 deg/min^3 $AJM50000000
A axis - Cornering delta 0.0020 in $ACD0.0020
A axis - Radius value 0.394 inches $ARA0.394
A axis - Limit switch mode 1 [0,1] $ALI1
A axis - Homing enabled 1 [0,1] $AHE1
A axis - Homing seek rate 45921 deg/min $AHR45921.26
A axis - Homing close rate 360 deg/min $AHC360.00
A axis - Homing offset 0 degrees $AHO0.00
A axis - Homing backoff 5 degrees $AHB5.00
B axis - Axis mode 3 [0-10] $BMO3
B axis - Seek rate 51024 deg/min $BSR51024
B axis - Feed rate 45921 deg/min $BFR45921
B axis - Travel hard limit -1 degrees $BTH-1
B axis - Travel soft limit -1 degrees $BTS-1
B axis - Jerk maximum 50000000 deg/min^3 $BJM50000000
B axis - Cornering delta 0.0020 in $BCD0.0020
B axis - Radius value 0.394 inches $BRA0.394
B axis - Limit switch mode 1 [0,1] $BLI1
B axis - Homing enabled 0 [0,1] $BHE0
B axis - Homing seek rate 45921 deg/min $BHR45921.26
B axis - Homing close rate 360 deg/min $BHC360.00
B axis - Homing offset 0 degrees $BHO0.00
B axis - Homing backoff 5 degrees $BHB5.00
C axis - Axis mode 3 [0-10] $CMO3
C axis - Seek rate 51024 deg/min $CSR51024
C axis - Feed rate 45921 deg/min $CFR45921
C axis - Travel hard limit -1 degrees $CTH-1
C axis - Travel soft limit -1 degrees $CTS-1
C axis - Jerk maximum 50000000 deg/min^3 $CJM50000000
C axis - Cornering delta 0.0020 in $CCD0.0020
C axis - Radius value 0.394 inches $CRA0.394
C axis - Limit switch mode 1 [0,1] $CLI1
C axis - Homing enabled 0 [0,1] $CHE0
C axis - Homing seek rate 45921 deg/min $CHR45921.26
C axis - Homing close rate 360 deg/min $CHC360.00
C axis - Homing offset 0 degrees $CHO0.00
C axis - Homing backoff 5 degrees $CHB5.00
Gcode: Units {G20,G21} 21 [20,21] $GU21
Gcode: Plane {G17,G18,G19} 17 [17,18,19] $GL17
Gcode: Path {G61,G61.1,G64} 64.0 [61,61.1,64] $GP64.0
Gcode: Distance Mode {G90,G91} 90 [90,91] $GD90
Enable Acceleration 1 [0,1] $EA1
Junction acceleration 3937 in/min^2 $JA3937
Min line segment length 0.0031 inches $ML0.0031
Min arc segment length 0.0039 inches $MC0.0039
Min segment time 10000 uSec $MT10000
Homing mode 0 [0,1] $HM0
Convert LF to CR LF (outgoing) 0 [0,1] $EC0
Ignore Incoming CR 0 [0,1] $IC0
Ignore Incoming LF 0 [0,1] $IL0
Enable Xon/Xoff Flow Control 1 [0,1] $EX1
Enable Echo 1 [0,1] $EE1
Thanks!