Half of this figured out, made the following corrections toying around with it:

Where I have the bolded piece of the script, replace that with:

if [ $"{filelist[$i]}" = "d" ]

As you can see, the " " are now added in the correct spot.

The results now show the following:

./echodir
echodir
Not A Directory
local.cshrc
Not A Directory
local.cshrc.JASS.20050613104129
Not A Directory
local.login
Not A Directory
local.login.JASS.20050613104129
Not A Directory
local.profile
Not A Directory
local.profile.JASS.20050613104129
Not A Directory
scripts
Not A Directory

Not A Directory

Not A Directory

The errors are gone, but now I'm getting an extra 3 runs of the loop, working on debugging this but wanted to keep you all up to date on how to fix that sort of issue...

Edit: The commands I run within the script to set up the arrays are the following, each file should have it's corresponding identifier as to whether its a file or directory etc. With the results above, it looks like "d" isn't detected at all...

ls -l . | grep -v total | awk '{print $9}'
echodir
local.cshrc
local.cshrc.JASS.20050613104129
local.login
local.login.JASS.20050613104129
local.profile
local.profile.JASS.20050613104129
scripts

ls -l . | grep -v total | awk '{print $1}' | cut -c1
-
-
-
-
-
-
-
d