-Credit goes to Zukuu for starting this template, I hope you do not mind me using it.
http://fallout.wikia.com/wiki/Fallout_4_perks
Lone Bounty Hunter-Ninja Survivalist (No-VATS or Power Armor)
I think I will start at:
Strength [1] (later 4)
-Armorer: I get to build the best (looking) armor
-Blacksmith: Looking for some stealthy melee stuff
Perception [4] (later 8)
-Rifleman: It's the most important perk in existence to my build. Will max that with priority. Might also affect shot gun damage.
-Locksmith: Always nice to have, since standing before a locked locker is always disheartening. 3/4 might be enough, since the last rank only makes lockpicks indestructible, which is "nice to have" but not "must have".
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Later:
-Sniper: More control and possibly knockback
Endurance [1] (later 9)
Endurance have some nice perks but nothing I want at the start of the game.
Later:
-Toughness: 'Nuff said
-Aqua Boy: Great for finding submerged items and being completely stealthy in water sounds amazing
-Ghoulish: No need to worry about BS "radiation is killing me" mechanics
Charisma [6]
For speech checks so maybe you want to level it sooner or later just for that. Since the beginning is pretty point starved, I wouldn't go all the way right away:
-Lone Wanderer: Holy moly. 50
% damage resistance and +200 carry weight?
-Local Leader: Having access to vendors in your home base sounds neat. Since I will probably only have a single settlement, the first perk is rather pointless to me.
Intelligence [8]
Int gives additional EXP,
-Medic: Efficiency is key. Stimpacks now heal over time. Combining Lone Wanderer and Toughness, means you can probably face tank any kind of damage, while regenerating life.
-Gun Nut: High priority skill to make my sniper rifle even better.
-Hacker: Less important than lockpicking, but it's just as much infuriating.
-Scrapper: If materials are hard to come by this will be good
-Robotic Expert: Sounds fun and I would imagine any place with robots will be worth scavenging around
Agility [7]
-Mister Sandman: Silence weapons will be amazing, taking out enemies without people knowing where I am.
-Ninja: Amazing damae
-Sneak: Great to have, shoot from long range then sneak inside a base to finish off others
Luck [1]
TL;DR
Core skills (8):
-Rifleman
-Locksmith
-Hacker
-Gun Nut
-Lone Wanderer
-Gunslinger
-Ninja
-Sneak
Secondary skills (4):
-Scrapper
-Armorer
-Blacksmith
-Aqua Boy
-Ghoulish
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I get to start off with some great perks that I can invest in. I hear leveling is pretty fast so I should be able to easily put points into STR/PER/END while playing the game to help me. My investment into END will help me back OP so that will probably happen later on in the game.