[SOLVED] Set Low Fuse Bit, Now Can't Program over ISP

The datasheet says that resonator has internal caps. I've use 8MHz ceramic resonators in my designs with no problems, although not at 3.3V and I set the low fuse byte to a more appropriate value.

Try feeding a clock signal from your 3.3V Arduino to XTAL1 through a 100 ohm resistor. The frequency doesn't matter much, I would try around 1MHz in the first instance. Leave CKOUT connected to your logic analyser so that you can check that you have a signal there.

Here's a sketch I use to get bursts of a known frequency on the OCR1A pin (pin 9 on an Arduino Uno):

// Generate a square wave of a given frequency on the OCR1A pin

#define REQUIRED_FREQUENCY  (38000)
#define REQUIRED_DIVISOR ((F_CPU/REQUIRED_FREQUENCY)/2)

#if (REQUIRED_DIVISOR < 65536)
# define PRESCALER  (1)
# define PRESCALER_BITS  (1)
#elif (REQUIRED_DIVISOR < 8 * 65536)
# define PRESCALER  (8)
# define PRESCALER_BITS  (2)
#elif (REQUIRED_DIVISOR < 64 * 65536)
# define PRESCALER  (8)
# define PRESCALER_BITS  (3)
#elif (REQUIRED_DIVISOR < 256 * 65536)
# define PRESCALER  (8)
# define PRESCALER_BITS  (4)
#elif (REQUIRED_DIVISOR < 1024 * 65536)
# define PRESCALER  (8)
# define PRESCALER_BITS  (5)
#else
# error Bad frequency
#endif

# define TOP        (((REQUIRED_DIVISOR + (PRESCALER/2))/PRESCALER) - 1)

void setup()
{
  pinMode(9, OUTPUT);
  digitalWrite(9, LOW);
  TCCR1A = 0;
  TCCR1B = (1 << WGM12) | PRESCALER_BITS;    // turn on
  TCCR1C = 0;
  OCR1AH = (TOP >> 8);
  OCR1AL = (TOP & 0xFF);
}

void on()
{
  TCNT1H = 0;
  TCNT1L = 0;  
  TCCR1A = (1 << COM1A0);
}

void off()
{
  TCCR1A = 0;
}

void loop()
{
  // Generate a burst 2ms long, then wait 10ms before generating the next one
  on();
  delay(2);  
  off();
  delay(10);
}