I got this idea from Direwolf20's LP series. I never have like frames. It just takes too much time to set them up, then error check etc.. So I thought up this method after seeing dw20's LP. Works great.

It requires 2 turtles. A mining turtle and an engineering turtle. The engineering turtle is made with a thermal expansion hammer. Not sure if anything else will make the engineering turtle work or not. Also I play on MC 1.4.7 in single player so not sure if this will work on a newer or older version of MC.

The engineering turtle needs these 2 programs:

This is named startup

shell.run("collectit")

This one is named collectit

while true do
  turtle.digUp()
  sleep(5)
end

Both of the above are required and should be named as I stated above, unless you change the appropriate code.

This is the program the mining turtle needs:

This program is named mynwell

-- Author: Truthowl
-- Makes turtle use a mining well and redstone energy cell to mine.
-- Requires an Engineering Turtle, Mining Turtle, Ender Chest,
-- Mining well, and a Thermal Expansion Energy Cell.
-- The Engineering Turtle was crafted with a Thermal Expansion Hammer.
-- Not sure if crafting with something else will work or not.
--
-- I made my mining turtle a chunk loading turtle as well.
-- That's not needed, but then you have to remain close or drop
-- your own chunk loader if you want to leave the area.
-- With this, you can even set your mynwell turtle to begin underground.
-- He/she will clear the workzone before placing the needed equipment.
-- Also, the turtle will backup 1 block to begin mining from
-- where you place him/her. So drop it from 2 blocks back or drop it
-- and move out of the way.
-- NOTE: Do not shut down your game while your mynwell turtle is running
-- They will stop and need to be restarted if you do.
--
-- You need to label both the mining and engineering turtles. I know,
-- that's obvious but thought I'd mention it anyway.
-- Okay the turtle's need the following programs.
--
-- Engineering Turtle --
-- collectit - GYCsY7rr
-- startup - TpZs1Mqm
-- ---------------------
-- Mining Turtle --
-- mynwell - xUtqQ73B (This program)
-- ---------------------
-- I removed the myfuel program and replaced it with myfuel function
function instructions()
print("Place a Redstone Energy Cell in slot 1")
print("Place an ender chest in slot 2")
print("Place a Mining well in slot 3")
print("Place an Engineering turtle in slot 4")
end
function getDim()
print("Current fuel level = " .. turtle.getFuelLevel())
print("How far should I mine before returning?")
l = tonumber(read())
print("How wide should my mining be?")
w = tonumber(read())
term.write("Left(1) or Right(2)?")
mydir = read()
return {l, w, mydir}
end
function clearWorkZone()
while turtle.detect() do
  turtle.dig()
  sleep(0.5)
end
while not turtle.up() do
  turtle.digUp()
end
while turtle.detect() do
  turtle.dig()
  sleep(0.5)
end
end
function forward()
  while not turtle.forward() do
   turtle.dig()
   turtle.suck()
   turtle.attack()
   turtle.suck()
   sleep(0.5)
  end
end
function deploy()
while turtle.getItemCount(1) ~= 0 do
  turtle.select(1)
  turtle.place()
end
turtle.down()
while turtle.getItemCount(2) ~= 0 do
  turtle.select(2)
  turtle.placeUp()
end
while turtle.getItemCount(4) ~= 0 do
  turtle.select(4)
  turtle.transferTo(16)
end
while turtle.getItemCount(3) ~= 0 do
  turtle.select(3)
  while not turtle.place() do
   turtle.dig()
   sleep(0.5)
  end
end
sleep(0.5)
end
function retrieve()
if turtle.getItemCount(1) > 0 then
  print("Error, sleeping for 10,000")
  sleeping(10000)
end
while turtle.getItemCount(2) == 0 do
  turtle.select(1)
  turtle.digUp()
  turtle.transferTo(2)
end
while turtle.getItemCount(3) == 0 do
  turtle.select(1)
  turtle.dig()
  turtle.transferTo(3)
end
while turtle.getItemCount(16) ~= 0 do
  turtle.select(16)
  turtle.place()
end
local engineer = peripheral.wrap("front")
while turtle.getItemCount(1) == 0 do
  engineer.turnOn()
  turtle.select(1)
  while not turtle.suck() do
   sleep(3)
  end
end
while turtle.dig() == false do
  sleep(0.1)
end
end
function scanMe()
turtle.select(1)
for i=1, 15 do
  if turtle.getItemCount(i) > 0 then
   return false
  end
end
return true
end
function unload()
turtle.select(1)
while scanMe() == false do
  for i=1,15 do
   turtle.select(i)
   if turtle.getItemCount(i) > 0 then
	if turtle.getFuelLevel() < 1000 then
	 turtle.refuel()
	end
	turtle.dropUp()
	sleep(0.1)
   end
  end
end
end
function mineLength(l)
for i=1, l do
  clearWorkZone()
  deploy()
  sleep(6)
  unload()
  retrieve()
  forward()
end
print("I have this much fuel left")
print(tostring(turtle.getFuelLevel()))
end
function turn(d,x)
if d == "1" then
  turtle.turnLeft()
  clearWorkZone()
  deploy()
  sleep(6)
  unload()
  retrieve()
  forward()
  turtle.turnLeft()
elseif d == "2" then
  turtle.turnRight()
  clearWorkZone()
  deploy()
  sleep(6)
  unload()
  retrieve()
  forward()
  turtle.turnRight()
else
  print("You were supposed to type a direction(1/2).")
  print ("But you typed " .. d .. " instead")
end
x = x + 1
return x
end
function myFuel()
print("My current fuel is: " .. tostring(turtle.getFuelLevel()))
end
-- Main
local myt
-- x = starting point by width
local x = 1
instructions()
myt = getDim()
local ll = tonumber(myt[1])
local ww = tonumber(myt[2])
local dd = myt[3]
local bb --this will be opposite dd
local recharge = turtle.getFuelLevel() - 960
print ("Length will be = " .. ll)
print ("Width will be =  " .. ww)
if dd == "1" then
bb = "2"
elseif dd == "2" then
bb = "1"
else
print("You were supposed to type a direction(1/2).")
print ("But you typed " .. dd .. " instead")
end
while not turtle.back() do
sleep(1)
end
mineLength(1)
if ww > x then
while x <= ww do
  if turtle.getFuelLevel() <= recharge then
   print("Waiting so you can change out the energy block")
   waiting = read()
   recharge = turtle.getFuelLevel() - 960
  end
  mineLength(ll)
  if x == ww then
   myFuel()
   return
  else
   x = turn(dd,x)
  end
  mineLength(ll)
  if x >= ww then
   myFuel()
   return
  else
   x = turn(bb,x)
  end
end
else
mineLength(ll)
end
print ("All Finished!")
myFuel()

I posted this over at FTB's forum's a week or more back. But in that posting I had my fuel checking program in it as well. Make sure to label btoh programs so they remember fuel and programs. Other than that you should be able to just run mynwell and fill in length, width and direction. Here's the pastebin codes:

Mining turtle
—–
mynwell - Fvz3A4Bk

Engineering turtle
—–
collectit - GYCsY7rr
startup - XdE0B0vd

I think that's everything. Works great and can even be started below ground. But the turtle backs up 1 block to begin mining. It mines very very fast. I set my Thermal Expansion Energy Cell's output at 10 sometimes as high as 20. The current code should pause mining after about 1000 fuel has been used. The reason for that is that if I have my Thermal Expansion Energy Cell's(TEEC for short) output set at 10 it will then pause mining and wait for me to put a fresh TEEC inside. I've done a 3x3, 10x10, 20x20 and a 100x5 quarry so far.

To summarize whats needed:
1) 1 Mining Turtle
2) 1 Engineering Turtle
3) 1 Ender chest
4) 1 Mining well
5) 1 TEEC(Thermal Expansion Energy Cell(fully charged))

Good luck and happy Strip Mining.