diff --git a/tools/agent-transport.mjs b/tools/agent-transport.mjs
index 42c7337..ab124fa 100644
--- a/tools/agent-transport.mjs
+++ b/tools/agent-transport.mjs
@@ -68,11 +68,6 @@ const updateRequestDefinition = defineDocumentType({
     parse: parseUpdateRequest,
   },
   name: "id",
-  indexes: {
-    targetRepoName: "targetRepoName",
-    targetAgentIdentity: "targetAgentIdentity",
-    status: "status",
-  },
   members: [
     { slot: 1, memberName: "id", typeName: "string", isName: true },
     { slot: 2, memberName: "targetRepoName", typeName: "string", indexAlias: "targetRepoName" },
diff --git a/tools/bifrost-crossing-documents.mjs b/tools/bifrost-crossing-documents.mjs
index b7d60ac..a05c27f 100644
--- a/tools/bifrost-crossing-documents.mjs
+++ b/tools/bifrost-crossing-documents.mjs
@@ -27,11 +27,6 @@ export function crossingReceiptDefinition(defineDocumentTypeInput) {
     contentHash: crossingReceiptSchemaId,
     global: false,
     name: "receiptId",
-    indexes: {
-      commandId: "commandId",
-      crossingKind: "crossingKind",
-      status: "status",
-    },
     schema: { parse: parseCrossingReceipt },
     members: [
       { slot: 1, memberName: "receiptId", typeName: "string", isName: true },
diff --git a/tools/bifrost-repository-release-authority.mjs b/tools/bifrost-repository-release-authority.mjs
index f1bf4a2..c8d0c02 100644
--- a/tools/bifrost-repository-release-authority.mjs
+++ b/tools/bifrost-repository-release-authority.mjs
@@ -24,7 +24,6 @@ export function repositoryReleaseAuthorityDefinition(defineDocumentTypeInput) {
     contentHash: repositoryReleaseAuthoritySchemaId,
     global: false,
     name: "authorityId",
-    indexes: { repositoryFullName: "repositoryFullName", upstreamRef: "upstreamRef", commitSha: "commitSha", status: "status" },
     schema: { parse: parseRepositoryReleaseAuthority },
     members: [
       { slot: 1, memberName: "authorityId", typeName: "string", isName: true },
diff --git a/tools/governance-threads.mjs b/tools/governance-threads.mjs
index 832e5f7..d2eae86 100644
--- a/tools/governance-threads.mjs
+++ b/tools/governance-threads.mjs
@@ -59,11 +59,6 @@ const topicDefinition = defineDocumentType({
   schemaVersion: "bifrost.governance.topic.v0",
   schema: { parse: parseTopic },
   name: "id",
-  indexes: {
-    jurisdictionRepoName: "jurisdictionRepoName",
-    jurisdictionAgentIdentity: "jurisdictionAgentIdentity",
-    status: "status",
-  },
   members: [
     { slot: 1, memberName: "id", typeName: "string", isName: true },
     { slot: 2, memberName: "title", typeName: "string" },
@@ -93,11 +88,6 @@ const commentDefinition = defineDocumentType({
   schemaVersion: "bifrost.governance.topic_comment.v0",
   schema: { parse: parseComment },
   name: "id",
-  indexes: {
-    topicId: "topicId",
-    authorId: "authorId",
-    stance: "stance",
-  },
   members: [
     { slot: 1, memberName: "id", typeName: "string", isName: true },
     { slot: 2, memberName: "topicId", typeName: "string", indexAlias: "topicId" },
diff --git a/tools/provider-advertisement.mjs b/tools/provider-advertisement.mjs
index 32563af..6c6a4fb 100644
--- a/tools/provider-advertisement.mjs
+++ b/tools/provider-advertisement.mjs
@@ -179,9 +179,6 @@ const advertisementDefinition = defineDocumentType({
     parse: (input) => parseAdvertisement(input, { requireCurrentContract: false }),
   },
   name: "providerId",
-  indexes: {
-    serviceName: "serviceName",
-  },
   members: [
     { slot: 1, memberName: "providerId", typeName: "string", isName: true },
     { slot: 2, memberName: "serviceName", typeName: "string", indexAlias: "serviceName" },