Computer shuts off at 45% Battery

Question

My MacBook Pro shuts off at 45% battery life, I do not get a low level warning before it shuts down. I have replaced this battery with a new one, and it does the same thing. I notice that my led on my charger blinks from amber to green all the while charging. My new battery only lasts from 45 minutes to one hour after a full charge. I have done the SCM resest and the Pram, I have done everything recommended. Still no answers. I have the original 2006 MacBook Pro and had the battery replacement exchange within the first 4 months of owning it. That battery worked fine until a couple weeks ago. I did some updates, and now it seems that it has affected my battery for some reason....This new battery I just installed last week. It's very frustrating to have to haul my ac charger with me everywhere. I do not have any extended warranty. Can anyone else give me something else to try? Below is my battery info.
AC Power:
System Sleep Timer (Minutes): 10
Disk Sleep Timer (Minutes): 10
Display Sleep Timer (Minutes): 10
Automatic Restart On Power Loss: No
Wake On AC Change: No
Wake On Clamshell Open: Yes
Wake On LAN: Yes
Display Sleep Uses Dim: Yes
Battery Power:
System Sleep Timer (Minutes): 20
Disk Sleep Timer (Minutes): 10
Display Sleep Timer (Minutes): 10
Wake On AC Change: No
Wake On Clamshell Open: Yes
Display Sleep Uses Dim: Yes
Reduce Brightness: Yes
Battery Information:
Battery Installed: Yes
First low level warning: No
Full Charge Capacity (mAh): 3496
Remaining Capacity (mAh): 1350
Amperage (mA): -2646
Voltage (mV): 10696
Cycle Count: 6
AC Charger Information:
Connected: No
Charging: No
Hardware Configuration:
UPS Installed: No

Answer 1

It strikes me as odd that your charger blinks from amber to green while charging rather than glowing a steady amber. Does it fully charge your battery--i.e. do all the lights in the battery light up, regardless of what it says in the menu bar?
For the battery to charge properly, three things have to work--the battery, the power adaptor, and the left I/O Board.
Your new battery sounds like it may be defective. Take a look at this article:
http://www.apple.com/support/macbook_macbookpro/batteryupdate/
After 6 cycles, your Remaining Capacity in should be very close to your Full Charge Capacity of 3496 mAh, rather than 1350 mAh.
It's also possible there could be a problem with your power adaptor or the left I/O Board. Usually the way to narrow it down is to try a known good power adaptor and a known good battery. If the problem remains, the left I/O Board is likely the problem.
It may be worth taking a careful look at both the port and the end of the MagSafe connector, and check to see that none of the pins has become pushed in or something like that. It may also be that the blinking green/amber indicates a faulty connection of some sort.
Good luck!