Newbie question on Standalone ATMega

Looks pretty good.
Do not connect CD+ on the ULN2003s to anything, that pin is only used when motors are being driven.
I personally would leave D0/D1 free for serial comms/sketch downloading, especially as you have other pins free.
Then add a 6-pin header for a Serial download cable such as an FTDI USB/Serial cable or adapter such as FTDI Basic: Gnd, Gnd, Vcc, Tx, Rx, DTR (DTR to 0.1uF cap, other side of cap to the Reset pin). (might haveTx, Rx swapped, need to check that). Or for a CP2102 USB/Serial adapter.

A0-A5 can be used as D14-D19, with internal pullup resistors, so a switch connecting the pin to ground can be read as button press.
Use a symbol like "MA06-1" for six 0.1" spaced holes good for 0.025" square posts.
Other hole quantities and arrangements are also available, such as "MA02-3" for 2x3 header for an ICSP connector.