Step 5 - Begin wiring, first with SPI connections to FPGA, then SPI flash.
Step 6 - Wire up JTAG connections for JTAG programming.
Step 7 - Add FPGA decoupling as per mfg. recommendations.
Step 8 - Break out IO pins and port (off-sheet) to top level in project hierarchy.
Step 9 - Complete clock circuit for FPGA.
Step 10 - Figure out breakout schema for IO pins and the various IO ports from the FPGA (i.e. the connections that will enable the FPGA to interact with the world...ex: 'perfboard'-style area, headers, etc.
Step 11 - Layout the design.
Step 1 - Don't panic.
Step 2 - Import the Arduino board file into Altium Designer: Using Altium Designer (AD) requires that I import Eagle board into AD. AD14.x includes an Eagle importer. Used source files from the Arduino site to import in AD.
Step 3 - Build major footprints: Costing the available board area requires building the major footprints and placing them on the PCB. Built early footprints and placed to determine what additional space is avail. Files in git.