I've just finished assembling a complete list of the disposition of all the orange cars, including those that were scrapped. The only cars not listed here are the diners, which were scrapped in the '40s. "NPS" indicates the car is owned by the National Park Service. "O&TRM" stands for Overhead & Third Rail Museum Group, which was the previous incarnation of the RAIL Foundation.
1 NPS - Southern Michigan Railroad (Clinton, Mich.)
2 Scrapped 1985 by O&TRM
3 RAIL Foundation (Noblesville, Ind.)
4 RAIL Foundation (North Judson, Ind.)
5 RAIL Foundation (Indianapolis, Ind.)
6 NPS - RAIL Foundation? (Bloomington, Ind.)
7 NPS - Fox River Trolley Museum (South Elgin, Ill.)
8 NPS - Illinois Railway Museum (Union, Ill.)
9 NPS - East Troy Electric Railroad (East Troy, Wis.)
10 Rebuilt 1951 into car 110
11 Michigan Transit Museum (Mount Clemens, Mich.)
12 Scrapped 1985 by O&TRM
13 NPS - East Troy Electric Railroad (East Troy, Wis.)
14 Fox River Trolley Museum (South Elgin, Ill.)
15 NPS - National New York Central Railroad Museum (Elkhart, Ind.)
16 Scrapped 1985 by O&TRM
17 Private Owner (Chesterton, Ind.)
18 Scrapped 1975 by CSS&SB
19 NPS - Illinois Railway Museum (Union, Ill.)
20 Scrapped 1985 by O&TRM
21 NPS - East Troy Electric Railroad (East Troy, Wis.)
22 Scrapped mid-1990s? (Florida)
23 NPS - RAIL Foundation? (Indianapolis, Ind.)
24 East Troy Electric Railroad (East Troy, Wis.)
25 East Troy Electric Railroad (East Troy, Wis.)
26 Private Owner (Chesterton, Ind.)
27 Scrapped 1985 by O&TRM
28 Illinois Railway Museum (Union, Ill.)
29 Rebuilt 1951 into car 111
30 East Troy Electric Railroad (East Troy, Wis.)
31 RAIL Foundation (North Judson, Ind.)
32 NPS - Seashore Trolley Museum (Kennebunkport, Maine)
33 NPS - RAIL Foundation? (Bloomington, Ind.)
34 Illinois Railway Museum (Union, Ill.)
35 Scrapped 1975 by CSS&SB
36 NPS - Southern Michigan Railroad (Raisin Center, Mich.)
37 NPS - Illinois Railway Museum (Union, Ill.)
38 Boone & Scenic Valley Railroad (Boone, Iowa)
39 Boone & Scenic Valley Railroad (Boone, Iowa)
40 NPS - Illinois Railway Museum (Union, Ill.)
100 Private Owner (Chesterton, Ind.)
101 Scrapped 1985 by O&TRM
102 Boone & Scenic Valley Railroad (Boone, Iowa)
103 Scrapped after 1983
104 Private Owner (Chesterton, Ind.)
105 Scrapped after 1983
106 Boone & Scenic Valley Railroad (Boone, Iowa)
107 NPS - RAIL Foundation? (Bloomington, Ind.)
108 Scrapped 2001 by RAIL Foundation (North Judson, Ind.)
109 Boone & Scenic Valley Railroad (Boone, Iowa)
110 Scrapped after 1983
111 East Troy Electric Railroad (East Troy, Wis.)
201 Scrapped 10/16/2004 by RAIL Foundation (Connersville, Ind.)
202 Sold 3/1983 to Gengnarel Lumber Co. (Auburn, Ind.); Scrapped 2000 by RAIL Foundation
203 NPS - RAIL Foundation? (Indianapolis, Ind.)
204 Indiana Railroad Museum (French Lick, Ind.)
205 Indiana Transportation Museum (Noblesville, Ind.)
206 Indiana Railroad Museum (French Lick, Ind.)
207 Scrapped 1972 by CSS&SB
208 Scrapped 1974 by CSS&SB
209 Scrapped 1972 by CSS&SB
210 Scrapped 1974 by CSS&SB
211 Scrapped 1974 by CSS&SB
212 Scrapped 1972 by CSS&SB
351 RAIL Foundation (Atlanta, Ind.)
352 Sold 1945 to MBA Construction Co.
353 Scrapped 1974 by CSS&SB
354 Scrapped 1974 by CSS&SB
503 City of Scottsburg, Indiana
504 Illinois Railway Museum (Union, Ill.)