Using Atmega_Board_Detector I DO have to press the reset button for it to work.
I have a 10 Kohm pull up resistor on the reset pin of the atmega. The reset pins for the AVRISPMKII and Atmega_Board_Detector goes directly to the reset pin. Using the AVRISPMKII I do not have to do anything and it works. Using Atmega_Board_Detector I DO have to press the reset button for it to work.
I do NOT have a 0.1uF from the DTR pin to the reset pin. Is this needed? I thought/hoped I could just hit reset before it started programming.
Nick: I do have a 10 uF capacitor on the analog power circuit and it is right next to the pin. On the power side I have the 4.7 uF I mentioned but it is closer to the power supply. So you believe I should have the .1 uFs right next to the chip also?
I put the two 10 Kohm pull up resistors on the two communication pins between the USB controller and the atmega chip. Did that and bingo! it works!