Tristate controller not mataching FLash chip control lines

So I finally got this working. I'm not sure why doing this triggered it but I think all I did after applying the above ideas was add the pin sharer (even though I'm not sharing any pins) and changed this

fd = alt_flash_open_dev(CFI_FLASH_CONTROLLER_NAME);

to this (basically replacing the define with the text it was defining

"/dev/CFI_Flash_Controller"

And all of a sudden it worked. The code I ran was this:

	//
	// Setup Flash
	//
	IOWR_ALTERA_AVALON_PIO_DATA(PIO_3_BASE,0xC0);
	fd = alt_flash_open_dev(CFI_FLASH_CONTROLLER_NAME);
	if(fd != NULL){
		printf("Flash recognized!\n");
		printf("0x%x \n", fd);
	}else{
		printf("Flash device not recognized!\n");
		printf("0x%x \n", fd);
	}

Because initially I just wanted to see if I could open the devices. It looks like it's working I've run this:

	//
	// Setup Flash
	//
	IOWR_ALTERA_AVALON_PIO_DATA(PIO_3_BASE,0xC0);
	fd = alt_flash_open_dev(CFI_FLASH_CONTROLLER_NAME);
	if(fd != NULL){
		printf("Flash recognized!\n");
		printf("0x%x \n", fd);
	}else{
		printf("Flash device not recognized!\n");
		printf("0x%x \n", fd);
	}
	// Test Flash memory
	ret_code = alt_write_flash(fd, 0, source, BUFF_SIZE);
	printf("Write return code: 0x%x \n", ret_code);
	ret_code = alt_read_flash(fd, 0, dest, BUFF_SIZE);
	printf("Read return code: 0x%x \n", ret_code);
	alt_flash_close_dev(fd);
	printf("Flash device closed! \n");

And everything checks out in that the functions return 0x00 and in debug mode my dest buffer has 0xAA's in it. I found this document that was somewhat helpful as well.

http://www.altera.com/literature/hb/nios2/n2sw_nii5v2.pdf

My Qsys config looks like this

https://www.alteraforum.com/forum/attachment.php?attachmentid=9462

Maybe this will help someone else out.