Gentlemen, after almost a year of not being on here I have found a lot more flags.
Lets take this from the top:
The Iron Brigade lost NO flags.
The 141st Pennsylvania did NOT lose a flag. In the Wheatfield, the 62nd Pa, 4th Michigan and 11th US Regulars lost a flag. The "almost captured" flag was of the 141st Pa. Source: "2 book series on all Pennsylvania regiments and their history".
In the OR report only 2 Union commanders reported a flag missing/captured. That was the 3rd Maine (National) and the 11th US Regulars.
There are many Union reports missing and never have been found, since Gettysburg.
The 75th Ohio lost their National flag in Hay's night attack. That still is the only flag of "4" that I have ever found.
The 26th Wisconsin lost their regimental flag to the 12th Georgia.
The 119th New York lost a flag to the 13th Georgia.
The 157th New York did lose a flag on Culp's Hill on Day 2. The 37th Va captured the flag.
The 154th New York did lose a flag. If you ever read about the 134th New York and the 154th New York at Gettysburg, they will say that the 154th New York saved the 134th New York's flags. The 134th New York saved 1 flag of the 154th New York. The other flag of the 154th New York was captured.
BG.Krynowski's Headquarters flag was captured. A soldier in his brigade wrote how he saw it get captured.
I have been on another Civil War message flag board. These gentlemen are the best in the world on North American flags. I have always wanted us to put our heads together and get a book or many books out on this subject.
To give an estimate on Union flags captured during the Civil War, the lowest count would be 300 flags (this includes Artillery, guidons etc.) and as high has 750 flags.
I am willing to work, trade and help anyone that wishes to know of Union/Confederate flags captured during the war. I have many many lists of both side. I live in Washington Dc and the LOC and National Archives has been a huge help.
Currently my mission is to find captured flags of the 11th Corps at Gettysburg.
Please feel free to send me a PM and I will be most happy to work with anyone, male or female, Union or Confederate, white, black, pink, purple etc.
The time as come to figure this all out and get books out on this subject. To let everyone know, I have no intentions of coming out with any books or anything etc.
I rather leave that with people that have written books already, I have been helping them for the past year.

Shawn