One thing that strikes me is that you should slot Hide as it's your only defense againse PBAoE's to get off that crucial first strike. You can strip the slots from your Energy Punch as if you can't get a two hit kill it's not worth hanging around in PvP.
The rest of the build seems fine and it's tactics that'll see you through PvP (avoid striking people in water, don't use buildup near someone as they can hear the powerup noise, etc.)
I'd also recommend respec'ing into this build at 40 (save a respec) as you will really be hurting for soloing with the lack of attacks.
Well, one slot for Hide could be taken of Jump Kick, assuming Dull Pain wouldn't be better off with it.
Also, and this is pure theory speculation here, I've noticed that most of those PBAoEs are knockback powers. I haven't seen to many damage AoE's being thrown around, but than again I might have been lucky. So I figured a knockback protection would be enough... Again, this is pure theory here, so I've no idea if this is true or not.
Also, could you tell me if Resilience is any good, and what is the self-damage of Energy Transfer?
I've also made a mistake in that post... I was wondering if Resiliance wouldn't be better swapped with Barrage, not Energy Punch, which is already there.
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Well, one slot for Hide could be taken of Jump Kick, assuming Dull Pain wouldn't be better off with it.
Also, and this is pure theory speculation here, I've noticed that most of those PBAoEs are knockback powers. I haven't seen to many damage AoE's being thrown around, but than again I might have been lucky. So I figured a knockback protection would be enough... Again, this is pure theory here, so I've no idea if this is true or not.
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Mud Pots, Caltrops, Blazing Aura, Lightning Field, etc. There are many PBAoE's that do damage and you know that dedicated PvPers will be taking them.
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Also, could you tell me if Resilience is any good, and what is the self-damage of Energy Transfer?
I've also made a mistake in that post... I was wondering if Resiliance wouldn't be better swapped with Barrage, not Energy Punch, which is already there.
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Alas, my En/En Stalker is still very low level so I can't really comment at all - you need a seasoned Energy Stalker 
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Mud Pots, Caltrops, Blazing Aura, Lightning Field, etc. There are many PBAoE's that do damage and you know that dedicated PvPers will be taking them.
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Ahh, then I was lucky. 
Last time I was in Sirenes, all I saw were some knockbacks. It was still a pain to AS those using them.
Although... I've been playing around some more in Char Builder to see what the stats would be when Hide is 3 slotted for defense. Effect: AoE defense at 9,1% (Stealth doesn't add defense against AoE), and that's with +1 SOs. Doesn't look like much TBH. 
I Think those damage thingies could get through that quite quickly.
Experiments needed! 
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Although... I've been playing around some more in Char Builder to see what the stats would be when Hide is 3 slotted for defense. Effect: AoE defense at 9,1% (Stealth doesn't add defense against AoE), and that's with +1 SOs. Doesn't look like much TBH. I Think those damage thingies could get through that quite quickly.
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Then you're looking at a dodgy Char Builder. Hide grants low defense to everything, but a high defense to AoE - around to 20-30% mark I believe.
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Then you're looking at a dodgy Char Builder. Hide grants low defense to everything, but a high defense to AoE - around to 20-30% mark I believe.
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I'd be getting a bit off topic now... but could you recommend a good char builder then? I'm using SherkSilver builder ATM.
I'd stay with it - it's just numbers that need updating (I've never been a numbers player - only use character builders to plan out slots and power)
Hope you're right then about the AoE defense. In that case it IS worth slotting it. 
So, I sat down and started pondering a bit and decided to try and "build" (using a char builder for now) an EN/regen stalker for PvP. Here's what I came up with:
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Exported from Ver: 1.7.5.0 of the CoH_CoV Character Builder
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Name: Name ?
Level: 41
Archetype: Stalker
Primary: Energy Melee
Secondary: Regeneration
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01) --> Energy Punch==> Acc(1)Dmg(5)Dmg(5)Dmg(39)Acc(40)
01) --> Hide==> DefBuf(1)
02) --> Fast Healing==> Heal(2)Heal(3)Heal(3)
04) --> Bone Smasher==> Acc(4)Dmg(7)Dmg(7)Dmg(40)Acc(40)
06) --> Assassin's Strike==> Acc(6)Acc(11)Dmg(13)Dmg(13)Dmg(15)
08) --> Build Up==> Rechg(8)Rechg(9)Rechg(9)TH_Buf(11)
10) --> Dull Pain==> Rechg(10)Rechg(15)Rechg(17)Heal(17)Heal(19)
12) --> Placate==> Rechg(12)Rechg(19)Rechg(21)
14) --> Jump Kick==> Acc(14)Dmg(39)
16) --> Super Jump==> Jump(16)
18) --> Integration==> Heal(18)Heal(21)Heal(23)EndRdx(23)EndRdx(25)
20) --> Swift==> Run(20)
22) --> Health==> Heal(22)Heal(25)Heal(27)
24) --> Stamina==> EndMod(24)EndMod(27)EndMod(29)
26) --> Stun==> Acc(26)Acc(29)DisDur(31)DisDur(31)DisDur(31)
28) --> Stealth==> DefBuf(28)
30) --> Energy Transfer==> Acc(30)Acc(33)Dmg(33)Dmg(33)Dmg(34)
32) --> Reconstruction==> Rechg(32)Rechg(34)Heal(34)Heal(36)Heal(36)
35) --> Instant Healing==> Rechg(35)Rechg(36)Rechg(37)Heal(37)Heal(37)Heal(39)
38) --> Resilience==> DmgRes(38)
A few things if I may:
a) this is not a build that should be "followed", that is, I plan to get my stalker to lvl 32 using something completely different, and respec at lvl 32 to get the powers in that order.
b) I didn't take Total Focus, because it seems useless for PvP. Correct me if I'm wrong, but loosing all your endurance on one attack seems like a death wish.
c) I didn't take MoG because I heard people whine about it.
d) While I don't really like Jump Kick, I figured this build could use one more attack power. JK could be slotted with 2 ACC enhancements. OR... perhaps that one more enhancement would be better of as a health enhancement in Dull Pain?
e) I have no idea how much self-damage Energy Transfer does. Is it worth the risk in PvP?
f) I don't know, but Resilience looks a bit crappy... Disorient protection is already in Integration, and the resistance is small. Perhaps Energy Punch would be better? Although then some powers would need to be stripped of some enhancement slots to make it more powerful.