diff --git a/server/controllers/events/events_controller_e2e_test.go b/server/controllers/events/events_controller_e2e_test.go
index cd844fb33..4a1320eb2 100644
--- a/server/controllers/events/events_controller_e2e_test.go
+++ b/server/controllers/events/events_controller_e2e_test.go
@@ -1059,6 +1059,7 @@ func setupE2E(t *testing.T, repoDir string) (events_controllers.VCSEventsControl
 		GitlabMergeRequestGetter:      e2eGitlabGetter,
 		Logger:                        logger,
 		StatsScope:                    statsScope,
+		GlobalCfg:                     globalCfg,
 		AllowForkPRs:                  allowForkPRs,
 		AllowForkPRsFlag:              "allow-fork-prs",
 		CommentCommandRunnerByCmd:     commentCommandRunnerByCmd,
diff --git a/server/events/command_runner.go b/server/events/command_runner.go
index 8028a1cfd..66274bdd2 100644
--- a/server/events/command_runner.go
+++ b/server/events/command_runner.go
@@ -24,6 +24,7 @@ import (
 	"github.com/runatlantis/atlantis/server/events/metrics"
 	"github.com/runatlantis/atlantis/server/events/models"
 	"github.com/runatlantis/atlantis/server/events/vcs"
+	"github.com/runatlantis/atlantis/server/events/yaml/valid"
 	"github.com/runatlantis/atlantis/server/feature"
 	"github.com/runatlantis/atlantis/server/logging"
 	"github.com/runatlantis/atlantis/server/recovery"
@@ -99,6 +100,7 @@ type DefaultCommandRunner struct {
 	EventParser              EventParsing
 	Logger                   logging.SimpleLogging
 	StatsScope               stats.Scope
+	GlobalCfg                valid.GlobalCfg
 	// AllowForkPRs controls whether we operate on pull requests from forks.
 	AllowForkPRs bool
 	// ParallelPoolSize controls the size of the wait group used to run
@@ -339,6 +341,13 @@ func (c *DefaultCommandRunner) validateCtxAndComment(ctx *CommandContext) bool {
 		}
 		return false
 	}
+
+	repo := c.GlobalCfg.MatchingRepo(ctx.Pull.BaseRepo.ID())
+	if !repo.BranchMatches(ctx.Pull.BaseBranch) {
+		ctx.Log.Info("command was run on a pull request which doesn't match base branches")
+		// just ignore it to allow us to use any git workflows without malicious intentions.
+		return false
+	}
 	return true
 }
 
diff --git a/server/events/command_runner_test.go b/server/events/command_runner_test.go
index 1068ff1ac..f38b7c721 100644
--- a/server/events/command_runner_test.go
+++ b/server/events/command_runner_test.go
@@ -16,6 +16,7 @@ package events_test
 import (
 	"errors"
 	"fmt"
+	"regexp"
 	"strings"
 	"testing"
 
@@ -193,6 +194,7 @@ func setup(t *testing.T) *vcsmocks.MockClient {
 	When(preWorkflowHooksCommandRunner.RunPreHooks(matchers.AnyPtrToEventsCommandContext())).ThenReturn(nil)
 
 	scope := stats.NewDefaultStore()
+	globalCfg := valid.NewGlobalCfgFromArgs(valid.GlobalCfgArgs{})
 
 	ch = events.DefaultCommandRunner{
 		VCSClient:                     vcsClient,
@@ -203,6 +205,7 @@ func setup(t *testing.T) *vcsmocks.MockClient {
 		AzureDevopsPullGetter:         azuredevopsGetter,
 		Logger:                        logger,
 		StatsScope:                    scope,
+		GlobalCfg:                     globalCfg,
 		AllowForkPRs:                  false,
 		AllowForkPRsFlag:              "allow-fork-prs-flag",
 		Drainer:                       drainer,
@@ -457,6 +460,40 @@ func TestRunCommentCommand_ClosedPull(t *testing.T) {
 	vcsClient.VerifyWasCalledOnce().CreateComment(fixtures.GithubRepo, modelPull.Num, "Atlantis commands can't be run on closed pull requests", "")
 }
 
+func TestRunCommentCommand_MatchedBranch(t *testing.T) {
+	t.Log("if a command is run on a pull request which matches base branches run plan successfully")
+	vcsClient := setup(t)
+
+	ch.GlobalCfg.Repos = append(ch.GlobalCfg.Repos, valid.Repo{
+		IDRegex:     regexp.MustCompile(".*"),
+		BranchRegex: regexp.MustCompile("^main$"),
+	})
+	var pull github.PullRequest
+	modelPull := models.PullRequest{BaseRepo: fixtures.GithubRepo, BaseBranch: "main"}
+	When(githubGetter.GetPullRequest(fixtures.GithubRepo, fixtures.Pull.Num)).ThenReturn(&pull, nil)
+	When(eventParsing.ParseGithubPull(&pull)).ThenReturn(modelPull, modelPull.BaseRepo, fixtures.GithubRepo, nil)
+
+	ch.RunCommentCommand(fixtures.GithubRepo, nil, nil, fixtures.User, fixtures.Pull.Num, &events.CommentCommand{Name: models.PlanCommand})
+	vcsClient.VerifyWasCalledOnce().CreateComment(fixtures.GithubRepo, modelPull.Num, "Ran Plan for 0 projects:\n\n\n\n", "plan")
+}
+
+func TestRunCommentCommand_UnmatchedBranch(t *testing.T) {
+	t.Log("if a command is run on a pull request which doesn't match base branches do not comment with error")
+	vcsClient := setup(t)
+
+	ch.GlobalCfg.Repos = append(ch.GlobalCfg.Repos, valid.Repo{
+		IDRegex:     regexp.MustCompile(".*"),
+		BranchRegex: regexp.MustCompile("^main$"),
+	})
+	var pull github.PullRequest
+	modelPull := models.PullRequest{BaseRepo: fixtures.GithubRepo, BaseBranch: "foo"}
+	When(githubGetter.GetPullRequest(fixtures.GithubRepo, fixtures.Pull.Num)).ThenReturn(&pull, nil)
+	When(eventParsing.ParseGithubPull(&pull)).ThenReturn(modelPull, modelPull.BaseRepo, fixtures.GithubRepo, nil)
+
+	ch.RunCommentCommand(fixtures.GithubRepo, nil, nil, fixtures.User, fixtures.Pull.Num, &events.CommentCommand{Name: models.PlanCommand})
+	vcsClient.VerifyWasCalled(Never()).CreateComment(matchers.AnyModelsRepo(), AnyInt(), AnyString(), AnyString())
+}
+
 func TestRunUnlockCommand_VCSComment(t *testing.T) {
 	t.Log("if unlock PR command is run, atlantis should" +
 		" invoke the delete command and comment on PR accordingly")
diff --git a/server/events/pre_workflow_hooks_command_runner.go b/server/events/pre_workflow_hooks_command_runner.go
index 1f110db1d..7619fd9a8 100644
--- a/server/events/pre_workflow_hooks_command_runner.go
+++ b/server/events/pre_workflow_hooks_command_runner.go
@@ -34,7 +34,7 @@ func (w *DefaultPreWorkflowHooksCommandRunner) RunPreHooks(
 
 	preWorkflowHooks := make([]*valid.PreWorkflowHook, 0)
 	for _, repo := range w.GlobalCfg.Repos {
-		if repo.IDMatches(baseRepo.ID()) && repo.BranchMatches(pull.BaseBranch) && len(repo.PreWorkflowHooks) > 0 {
+		if repo.IDMatches(baseRepo.ID()) && len(repo.PreWorkflowHooks) > 0 {
 			preWorkflowHooks = append(preWorkflowHooks, repo.PreWorkflowHooks...)
 		}
 	}
diff --git a/server/events/yaml/valid/global_cfg.go b/server/events/yaml/valid/global_cfg.go
index 6b887680a..2290a2765 100644
--- a/server/events/yaml/valid/global_cfg.go
+++ b/server/events/yaml/valid/global_cfg.go
@@ -472,3 +472,15 @@ func (g GlobalCfg) getMatchingCfg(log logging.SimpleLogging, repoID string) (app
 	}
 	return
 }
+
+// MatchingRepo returns an instance of Repo which matches a given repoID.
+// If multiple repos match, return the last one for consistency with getMatchingCfg.
+func (g GlobalCfg) MatchingRepo(repoID string) *Repo {
+	for i := len(g.Repos) - 1; i >= 0; i-- {
+		repo := g.Repos[i]
+		if repo.IDMatches(repoID) {
+			return &repo
+		}
+	}
+	return nil
+}
diff --git a/server/events/yaml/valid/global_cfg_test.go b/server/events/yaml/valid/global_cfg_test.go
index 475cf7dfa..f317a8101 100644
--- a/server/events/yaml/valid/global_cfg_test.go
+++ b/server/events/yaml/valid/global_cfg_test.go
@@ -892,6 +892,69 @@ func TestRepo_BranchMatches(t *testing.T) {
 	Equals(t, false, (valid.Repo{BranchRegex: regexp.MustCompile("release")}).BranchMatches("main"))
 }
 
+func TestGlobalCfg_MatchingRepo(t *testing.T) {
+	defaultRepo := valid.Repo{
+		IDRegex:           regexp.MustCompile(".*"),
+		BranchRegex:       regexp.MustCompile(".*"),
+		ApplyRequirements: []string{},
+	}
+	repo1 := valid.Repo{
+		IDRegex:           regexp.MustCompile(".*"),
+		BranchRegex:       regexp.MustCompile("^main$"),
+		ApplyRequirements: []string{"approved"},
+	}
+	repo2 := valid.Repo{
+		ID:                "github.com/owner/repo",
+		BranchRegex:       regexp.MustCompile("^master$"),
+		ApplyRequirements: []string{"approved", "mergeable"},
+	}
+
+	cases := map[string]struct {
+		gCfg   valid.GlobalCfg
+		repoID string
+		exp    *valid.Repo
+	}{
+		"matches to default": {
+			gCfg: valid.GlobalCfg{
+				Repos: []valid.Repo{
+					defaultRepo,
+					repo2,
+				},
+			},
+			repoID: "foo",
+			exp:    &defaultRepo,
+		},
+		"matches to IDRegex": {
+			gCfg: valid.GlobalCfg{
+				Repos: []valid.Repo{
+					defaultRepo,
+					repo1,
+					repo2,
+				},
+			},
+			repoID: "foo",
+			exp:    &repo1,
+		},
+		"matches to ID": {
+			gCfg: valid.GlobalCfg{
+				Repos: []valid.Repo{
+					defaultRepo,
+					repo1,
+					repo2,
+				},
+			},
+			repoID: "github.com/owner/repo",
+			exp:    &repo2,
+		},
+	}
+
+	for name, c := range cases {
+		t.Run(name, func(t *testing.T) {
+			Equals(t, c.exp, c.gCfg.MatchingRepo(c.repoID))
+		})
+	}
+}
+
 // String is a helper routine that allocates a new string value
 // to store v and returns a pointer to it.
 func String(v string) *string { return &v }
diff --git a/server/server.go b/server/server.go
index 8185bc056..551ea4c4e 100644
--- a/server/server.go
+++ b/server/server.go
@@ -702,6 +702,7 @@ func NewServer(userConfig UserConfig, config Config) (*Server, error) {
 		EventParser:                   eventParser,
 		Logger:                        logger,
 		StatsScope:                    statsScope.Scope("cmd"),
+		GlobalCfg:                     globalCfg,
 		AllowForkPRs:                  userConfig.AllowForkPRs,
 		AllowForkPRsFlag:              config.AllowForkPRsFlag,
 		SilenceForkPRErrors:           userConfig.SilenceForkPRErrors,