時間がかかりましたが
AMAZONよりドキュメントファイルの提供があり、解決しました。
提供のあったファイルを公開します。

サンプルのXMLファイルと
ドキュメントです。
同じ状況にある方の手助けになれば幸いです。

尚、インストーラーの修復はまだ確認できていません。

---

Name:

configure - Configure AMTU seller accounts through an XML file

Synopsis:

configure command [file]

Description:

Configures AMTU seller accounts using an XML configuration file. This tool
enables automated account setup and backup.

Note: AMTU must not be running when this utility is run.

Valid Commands:

SETUP
Reads the file and add, updates, and deletes accounts and sites as directed.

EXPORT
Exports the current accounts stored in AMTU as an XML document.
If a file is not specified, the XML content will be output to the console.

PROXY
Reads the file and adds, updates, and deletes application proxy settings.
Please note that there is a different XML structure specified towards the
bottom of the documentation.

HELP
Prints this help text

Sample Setup XML Structure:

<?xml version="1.0" encoding="UTF-8" standalone="no" ?> [3] [4] [5] [6]

<!-- Optional Elements -->
  <accountconfig>
    <config key="[7]">[8]</config>
    <!-- Repeat above as necessary -->
  </accountconfig>
  <site_groups>
    <site_group name="[9]" delete="[10]">
       <directory>[11]</directory>
       <site name="[12]" marketplaceid="[13]" />
    </site_group>
    <!-- Repeat above as necessary -->
  </site_groups>
<!-- End Optional Elements -->

Values for elements described above:

[1] - This is the name the account will be called in AMTU. This name must be
unique to this account.
[2] - Optional: Whether to delete this account from AMTU. Use value “true” to
delete this account.
[3] - The MWS auth token for this seller account. This is provided to you
during sign-up for MWS access.
[4] - The Merchant ID for this seller account. This is provided to you during
sign-up for MWS access.
[5] - The 2-character code describing the MWS endpoint this account should
use. The list of valid codes is printed below.
[6] - The full file system path to the Document Transport Directory for this
account. This folder must be unique to this account.
[7] - Account configuration key. The list of valid keys is printed below.
[8] - The value to store for this configuration key. The accepted values for
each key are printed below.
[9] - The name of this Site Group. This name must be unique within this
account.
[10] - Optional: Whether to delete this Site Group from this account. Use
value “true” to delete this Site Group.
[11] - The folder under this account’s Document Transport Directory to use for
this Site Group. This folder must be unique to this account.
Valid characters: A-Z, a-z, 0-9, and underscore _
[12] - The name of the Site to associate with this Site Group. This name must
be unique within this account.
Note: Typically, this will be the name of a country or a webstore.
[13] - The Marketplace ID to associate with this Site.

Valid Configuration Keys:

FEED_DISPATCH_INTERVAL
How many minutes to wait between feed uploads.
Whole numbers only. Minimum: 2

PROCESSING_REPORT_RETRIEVAL_INTERVAL
How many minutes to wait between feed status updates and processing report
retrievals.
Whole numbers only. Minimum: 2

REPORT_RETRIEVAL_INTERVAL
How many minutes to wait between report downloads.
Whole numbers only. Minimum: 5

REPORTS_DISABLED
Whether report downloads should be disabled for this seller account.
Y or N only

Available MWS Endpoints:

These 2-character codes are used by AMTU to select the proper MWS endpoint.

CA - Canada
CN - China
DE - Germany
FR - France
IT - Italy
JP - Japan
UK - United Kingdom
US - United States

Standard Amazon Site Marketplace IDs:

CA - A2EUQ1WTGCTBG2
CN - AAHKV2X7AFYLW
DE - A1PA6795UKMFR9
FR - A13V1IB3VIYZZH
IT - APJ6JRA9NG5V4
JP - A1VC38T7YXB528
UK - A1F83G8C2ARO7P
US - ATVPDKIKX0DER

Sample Proxy XML Structure:

<?xml version="1.0" encoding="UTF-8" standalone="no" ?> [2] [3] [4] [5]

Values for elements described above:

[1] - Optional: Set to true if you are deleting the proxy setting, false for
add and update operations. Setting delete=“true” will
override all other information given and will delete the config.
[2] - The proxy host name you are connecting through. This field is
required. This field is limited to whole numbers.
[3] - The proxy port number. This field is required.
[4] - The username needed to authenticate access through the proxy.
This is an optional field.
[5] - The password associated with the username. This is an optional
field.

---

<?xml version="1.0" encoding="UTF-8" standalone="no" ?> MWS_AUTH_TOKEN MERCHANT_ID MWS_ENDPOINT_2CHAR_COUNTRYCODE TRANSPORT_DIRECTORY_ABSOLUTE_ADDRESS CONFIG_KEY_VALUE SITE_GROUP_SPECIFIC_TRANSPORT_DIRECTORY</>