Question: I've used Ubuntu using WUBI for a couple of months and decided that this was not what I wanted and that Ubuntu should have its own partition. I have it set up like that now. My dilemma deals with what bootloader to use as the primary one. 

As it is now, after my laptop's splash screen, Grub 2 shows up and one of the options is Windows. My concern is that some problem with either Ubuntu or Windows would make it so the respective bootloader won't work and the operating system that is perfectly fine won't be able to be accessed because of the failure of one of the bootloaders.

So, I was wondering if there is a general consensus as to which bootloader to have in charge. Thanks in advance.

EDIT: So one bootloader is not inherently more secure than the other? I have read that holding shift on boot makes Grub appear but would this be the case even if something happened to the Ubuntu install? Or do I not have much to worry about because Ubuntu is pretty stable, as long as I stay with the 6 month release cycle?

Answer: 
Depends, both work well, use the one you feel most comfortable with.

If you want support from the Linux / Ubuntu community , use grub.

If you use the windows boot loader, your support will be either Microsoft or the Windows community.
The windows boot manager will show only the windows versions of os only but not the other
Where as the GRUB will show all the operating systems present the hard disk my my advice is to use only GRUB.